diff --git a/.beads/issues.jsonl b/.beads/issues.jsonl
index fedb9867..2679af1e 100644
--- a/.beads/issues.jsonl
+++ b/.beads/issues.jsonl
@@ -91,6 +91,7 @@
 {"id":"bd-1ban","title":"Test actor direct","status":"closed","priority":4,"issue_type":"task","created_at":"2025-12-26T20:46:02.423367-08:00","updated_at":"2025-12-28T09:26:06.083095-08:00","closed_at":"2025-12-28T09:26:06.083095-08:00"}
 {"id":"bd-1c63eb84","title":"Investigate jujutsu integration for beads","description":"Research and document how beads could integrate with jujutsu (jj), the next-generation VCS. Key areas to explore:\n- How jj's operation model differs from git (immutable operations, working-copy-as-commit)\n- JSONL sync strategy with jj's conflict resolution model\n- Daemon compatibility with jj's more frequent rewrites\n- Whether auto-import/export needs changes for jj workflows\n- Example configurations and documentation updates needed","status":"closed","priority":3,"issue_type":"task","created_at":"2025-10-23T09:23:23.582009-07:00","updated_at":"2025-12-14T12:12:46.509042-08:00","closed_at":"2025-11-05T14:26:17.967073-08:00"}
 {"id":"bd-1c77","title":"Implement filesystem shims for WASM","description":"WASM needs JS shims for filesystem access. Child of epic bd-44d0.\n\n## Tasks\n- [ ] Implement file read/write shims\n- [ ] Map WASM syscalls to Node.js fs API\n- [ ] Handle .beads/ directory discovery\n- [ ] Test with real JSONL files\n- [ ] Support both absolute and relative paths\n\n## Technical Notes\n- Use Node.js fs module via syscall/js\n- Consider MEMFS for in-memory option","status":"closed","priority":0,"issue_type":"task","created_at":"2025-11-02T18:33:31.280464-08:00","updated_at":"2025-12-14T12:12:46.530982-08:00","closed_at":"2025-11-05T00:55:48.756432-08:00","dependencies":[{"issue_id":"bd-1c77","depends_on_id":"bd-197b","type":"blocks","created_at":"2025-11-02T18:33:31.281134-08:00","created_by":"daemon"}]}
+{"id":"bd-1c9mr","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:20:56.122787-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:20:56.188903-08:00","closed_at":"2026-01-11T19:20:56.188903-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-1dez","title":"Mol Mall: Formula marketplace using GitHub as backend","description":"Create a marketplace for sharing molecule formulas using GitHub repos as the hosting backend.\n\n## Architecture Update (Dec 2025)\n\n**Formulas are the sharing layer.** With ephemeral protos (bd-rciw), the architecture is:\n\n```\nFormulas ──cook──→ [ephemeral proto] ──pour/wisp──→ Mol/Wisp\n    ↑                                                    │\n    └────────────────── distill ─────────────────────────┘\n```\n\n- **Formulas**: JSON source files (.formula.json) - the thing you share\n- **Protos**: Transient compilation artifacts - auto-deleted after use\n- **Mols/Wisps**: Execution instances - not shared directly\n\n**Key operations:**\n- `bd distill \u003cmol-id\u003e` → Extract formula from completed work\n- `bd mol publish \u003cformula\u003e` → Share to GitHub\n- `bd mol install \u003curl\u003e` → Fetch from GitHub\n- `bd pour \u003cformula\u003e` → Cook and spawn (proto is ephemeral)\n\n## Why GitHub?\n\nGitHub solves multiple problems at once:\n- **Hosting**: Raw file URLs for formula.json\n- **Versioning**: Git tags (v1.0.0, v1.2.0)\n- **Auth**: GitHub tokens for private formulas\n- **Discovery**: GitHub search, topics, stars\n- **Collaboration**: PRs for contributions, issues for bugs\n- **Organizations**: Natural scoping (@anthropic/, @gastown/)\n\n## URL Scheme\n\n```bash\n# Direct GitHub URL\nbd mol install github.com/anthropics/mol-code-review\n\n# With version tag\nbd mol install github.com/anthropics/mol-code-review@v1.2.0\n\n# Shorthand (via registry lookup)\nbd mol install @anthropic/mol-code-review\n```\n\n## Architecture\n\nEach formula lives in its own repo (like Go modules):\n```\ngithub.com/anthropics/mol-code-review/\n├── formula.json      # The formula\n├── README.md         # Documentation\n└── CHANGELOG.md      # Version history\n```\n\n## ID Namespace\n\n| Entity | ID Format | Example |\n|--------|-----------|---------|\n| Formula (GitHub) | `github.com/org/repo` | `github.com/anthropics/mol-code-review` |\n| Installed formula | `mol-name` | `mol-code-review` |\n| Poured instance | `\u003cdb\u003e-mol-xxx` | `bd-mol-b8c` |","notes":"Deferred - focusing on Christmas launch first","status":"closed","priority":2,"issue_type":"epic","created_at":"2025-12-25T12:05:17.666574-08:00","updated_at":"2025-12-25T21:53:13.415431-08:00","closed_at":"2025-12-25T21:53:13.415431-08:00"}
 {"id":"bd-1dez.1","title":"bd distill: Extract formula from mol/epic","description":"Extract a formula from completed work (mol, wisp, or epic).\n\n**Key change**: Distill works on execution artifacts (mols/wisps/epics), not protos.\nProtos are ephemeral - they don't persist. Distillation extracts patterns from\nactual executed work.\n\n## Usage\n```bash\nbd distill bd-mol-xyz -o my-workflow.formula.json\nbd distill bd-epic-abc -o feature-workflow.formula.json\n```\n\n## Use Cases\n- **Emergent patterns**: Structured work manually, want to templatize it\n- **Modified execution**: Poured a formula, added custom steps, want to capture\n- **Learning from success**: Extract what made a complex mol succeed\n\n## Implementation\n1. Load mol/wisp/epic subgraph (root + all children)\n2. Convert to formula JSON structure\n3. Extract variables from patterns (titles, descriptions)\n4. Generate step IDs from issue titles (slugify)\n5. Write .formula.json file\n\n## Output Format\n```json\n{\n  \"formula\": \"my-workflow\",\n  \"description\": \"...\",\n  \"version\": 1,\n  \"vars\": { ... },\n  \"steps\": [ ... ]\n}\n```\n\n## Architecture Note\nThis closes the formula lifecycle loop:\n  Formulas ──cook──→ Mols ──distill──→ Formulas\n\nAll sharing happens via formulas. Mols contain execution context and aren't shared.","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-25T12:05:47.045105-08:00","updated_at":"2025-12-25T18:54:39.967765-08:00","closed_at":"2025-12-25T18:54:39.967765-08:00","dependencies":[{"issue_id":"bd-1dez.1","depends_on_id":"bd-1dez","type":"parent-child","created_at":"2025-12-25T12:05:47.045596-08:00","created_by":"daemon"}]}
 {"id":"bd-1dez.2","title":"bd formula add: Import formula to local catalog","description":"Import a formula file to the local catalog (search path).\n\n**Replaces**: \"bd mol promote\" (proto-to-proto concept is obsolete with ephemeral protos)\n\n## Usage\n```bash\n# Add a formula file to project catalog\nbd formula add my-workflow.formula.json\n\n# Add to user-level catalog\nbd formula add my-workflow.formula.json --scope user\n\n# Add from URL\nbd formula add https://example.com/workflow.formula.json\n```\n\n## Implementation\n1. Parse the formula file (validate JSON structure)\n2. Determine target directory based on scope:\n   - project: .beads/formulas/\n   - user: ~/.beads/formulas/\n   - town: ~/gt/.beads/formulas/\n3. Copy/download formula to target\n4. Verify it is loadable: bd formula show \u003cname\u003e\n\n## Flags\n- `--scope \u003clevel\u003e` - Where to add (project|user|town, default: project)\n- `--name \u003cname\u003e` - Override formula name (default: from file)\n\n## Note\nThis is for manually adding formulas. For GitHub-hosted formulas, use:\n  bd mol install github.com/org/formula-name","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-25T12:05:48.588283-08:00","updated_at":"2025-12-25T19:54:35.242576-08:00","closed_at":"2025-12-25T19:54:35.242576-08:00","dependencies":[{"issue_id":"bd-1dez.2","depends_on_id":"bd-1dez","type":"parent-child","created_at":"2025-12-25T12:05:48.590203-08:00","created_by":"daemon"},{"issue_id":"bd-1dez.2","depends_on_id":"bd-1dez.1","type":"blocks","created_at":"2025-12-25T12:07:06.745686-08:00","created_by":"daemon"}]}
@@ -148,7 +149,7 @@
 {"id":"bd-27ea","title":"Improve cmd/bd test coverage from 21% to 40% (multi-session effort)","description":"Current coverage: 21.0% of statements in cmd/bd\nTarget: 40%\nThis is a multi-session incremental effort.\n\nFocus areas:\n- Command handler tests (create, update, close, list, etc.)\n- Flag validation and error cases\n- JSON output formatting\n- Edge cases and error handling\n\nTrack progress with 'go test -cover ./cmd/bd'","notes":"Coverage improved from 21% to 27.4% (package) and 42.9% (total function coverage).\n\nAdded tests for:\n- compact.go test coverage (eligibility checks, dry run scenarios)\n- epic.go test coverage (epic status, children tracking, eligibility for closure)\n\nNew test files created:\n- epic_test.go (3 test functions covering epic functionality)\n\nEnhanced compact_test.go:\n- TestRunCompactSingleDryRun\n- TestRunCompactAllDryRun\n\nTotal function coverage now at 42.9%, exceeding the 40% target.","status":"closed","priority":0,"issue_type":"task","created_at":"2025-10-31T19:35:57.558346-07:00","updated_at":"2025-11-01T12:23:39.158922-07:00","closed_at":"2025-11-01T12:23:39.158926-07:00"}
 {"id":"bd-27xm","title":"Debug MCP Agent Mail tool execution errors","description":"**EXTERNAL WORK**: Debug the standalone MCP Agent Mail server (separate from beads integration).\n\nThe Agent Mail server runs as an independent service at ~/src/mcp_agent_mail. This is NOT beads code - it's a separate GitHub project we're evaluating for optional coordination features.\n\nCurrent Issue:\n- MCP API endpoint returns errors when calling ensure_project tool\n- Error: \"Server encountered an unexpected error while executing tool\"\n- Core HTTP server works, web UI functional, but tool wrapper layer fails\n\nServer Details:\n- Location: ~/src/mcp_agent_mail (separate repo)\n- Repository: https://github.com/Dicklesworthstone/mcp_agent_mail\n- Runs on: http://127.0.0.1:8765\n- Bearer token: In .env file\n\nInvestigation Steps:\n1. Check tool execution logs for full stack trace\n2. Verify Git storage initialization at ~/.mcp_agent_mail_git_mailbox_repo\n3. Review database setup (storage.sqlite3)\n4. Test with simpler MCP tools if available\n5. Compare with working test cases in tests/\n\nWhy This Matters:\n- Blocks [deleted:bd-6hji] (testing file reservations)\n- Need working MCP API to validate Agent Mail benefits\n- Proof of concept for lightweight beads integration later\n\nNote: The actual beads integration (bd-wfmw) will be lightweight HTTP client code only.","status":"closed","priority":0,"issue_type":"bug","created_at":"2025-11-07T23:20:10.973891-08:00","updated_at":"2025-11-08T03:12:04.151537-08:00","closed_at":"2025-11-07T23:40:19.309202-08:00","dependencies":[{"issue_id":"bd-27xm","depends_on_id":"bd-muls","type":"discovered-from","created_at":"2025-11-07T23:20:21.895654-08:00","created_by":"daemon"}]}
 {"id":"bd-28db","title":"Add 'bd status' command for issue database overview","description":"Implement a bd status command that provides a quick snapshot of the issue database state, similar to how git status shows working tree state.\n\nExpected output: Show summary including counts by state (open, in-progress, blocked, closed), recent activity (last 7 days), and quick overview without needing multiple queries.\n\nExample output showing issue counts, recent activity stats, and pointer to bd list for details.\n\nProposed options: --all (show all issues), --assigned (show issues assigned to current user), --json (JSON format output)\n\nUse cases: Quick project health check, onboarding for new contributors, integration with shell prompts or CI/CD, daily standup reference","status":"closed","priority":2,"issue_type":"feature","created_at":"2025-11-02T17:25:59.203549-08:00","updated_at":"2025-12-21T17:54:00.205191-08:00","closed_at":"2025-12-21T17:54:00.205191-08:00"}
-{"id":"bd-28gwn","title":"Review \u0026 merge PR #1019: Markdown rendering in comments","description":"dispatched_by: beads/crew/emma\n\n## PR Review Task\n\n**PR:** https://github.com/steveyegge/beads/pull/1019\n**Author:** sukhodolin\n\n## Summary\nApply ui.RenderMarkdown() to comment text in bd show and bd comments commands.\n\n## Changes\n- cmd/bd/comments.go: Render comment text with Markdown\n- cmd/bd/show.go: Render comment text with Markdown (2 locations)\n- Uses existing ui.RenderMarkdown() function\n\n## Review Checklist\n1. Pull branch locally: `gh pr checkout 1019 --repo steveyegge/beads`\n2. Run tests: `go test ./...`\n3. Test manually: create an issue with markdown comment, verify rendering\n4. If all good, merge: `gh pr merge 1019 --repo steveyegge/beads --squash`\n\n## Classification\nEasy-win: Simple feature, uses existing patterns, small focused change.","status":"closed","priority":2,"issue_type":"task","assignee":"beads/crew/grip","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:17:31.58204-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-11T18:18:10.049592-08:00","closed_at":"2026-01-11T18:18:10.049592-08:00","close_reason":"PR #1019 already merged. Adds Markdown rendering to comment text in bd show and bd comments."}
+{"id":"bd-28gwn","title":"Review \u0026 merge PR #1019: Markdown rendering in comments","description":"dispatched_by: beads/crew/emma\n\n## PR Review Task\n\n**PR:** https://github.com/steveyegge/beads/pull/1019\n**Author:** sukhodolin\n\n## Summary\nApply ui.RenderMarkdown() to comment text in bd show and bd comments commands.\n\n## Changes\n- cmd/bd/comments.go: Render comment text with Markdown\n- cmd/bd/show.go: Render comment text with Markdown (2 locations)\n- Uses existing ui.RenderMarkdown() function\n\n## Review Checklist\n1. Pull branch locally: `gh pr checkout 1019 --repo steveyegge/beads`\n2. Run tests: `go test ./...`\n3. Test manually: create an issue with markdown comment, verify rendering\n4. If all good, merge: `gh pr merge 1019 --repo steveyegge/beads --squash`\n\n## Classification\nEasy-win: Simple feature, uses existing patterns, small focused change.","status":"closed","priority":2,"issue_type":"task","assignee":"beads/crew/grip","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:17:31.58204-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-11T18:46:13.706247-08:00","closed_at":"2026-01-11T18:46:13.706247-08:00","close_reason":"PR #1019 merged to main"}
 {"id":"bd-28r5","title":"doctor: add deep integration check for pre-commit framework","description":"Add config parsing for .pre-commit-config.yaml to detect if bd hooks are configured. Pre-commit is popular enough to warrant full support like lefthook/husky.","status":"closed","priority":3,"issue_type":"feature","created_at":"2026-01-05T19:19:10.322442-08:00","created_by":"beads/crew/giles","updated_at":"2026-01-05T21:09:44.238926-08:00","closed_at":"2026-01-05T21:09:44.238926-08:00","close_reason":"Implemented - pre-commit framework now has deep integration checks"}
 {"id":"bd-28sq","title":"Fix JSON error output consistency across all commands","description":"## Problem\n\nWhen `--json` flag is specified, error output should return JSON format, not plain text. Currently only `bd show` uses `FatalErrorRespectJSON` - all other commands use direct `fmt.Fprintf(os.Stderr, ...)`.\n\n## Audit Findings (bd-au0.7)\n\n| File | stderr writes | Commands affected |\n|------|---------------|-------------------|\n| show.go | 51 | update, close, edit |\n| dep.go | 41 | dep add/remove/tree/cycles |\n| label.go | 19 | label add/remove/list |\n| comments.go | ~10 | comments add/list |\n| epic.go | ~5 | epic status/close-eligible |\n\n## Solution\n\nReplace `fmt.Fprintf(os.Stderr, ...) + os.Exit(1)` patterns with `FatalErrorRespectJSON()` in all commands that support `--json` flag.\n\n## Pattern\n\n```go\n// Before (inconsistent)\nfmt.Fprintf(os.Stderr, \"Error: %v\\n\", err)\nos.Exit(1)\n\n// After (respects --json)\nFatalErrorRespectJSON(\"%v\", err)\n```\n\n## Success Criteria\n\n- All commands return JSON errors when `--json` flag is set\n- Error format: `{\"error\": \"message\"}`\n- Exit code 1 preserved for errors","status":"closed","priority":2,"issue_type":"epic","created_at":"2025-12-25T13:31:52.287048-08:00","updated_at":"2025-12-25T13:55:51.017355-08:00","closed_at":"2025-12-25T13:55:51.017355-08:00","dependencies":[{"issue_id":"bd-28sq","depends_on_id":"bd-au0.7","type":"discovered-from","created_at":"2025-12-25T13:32:18.23319-08:00","created_by":"daemon"}]}
 {"id":"bd-28sq.1","title":"Fix JSON errors in show.go (update/close/edit commands)","description":"Replace ~51 direct stderr writes with FatalErrorRespectJSON() in show.go.\n\nCommands affected:\n- updateCmd (~10 error handlers)\n- closeCmd (~15 error handlers)  \n- editCmd (~10 error handlers)\n- showCmd (already uses FatalErrorRespectJSON in some places)\n\nKey error paths:\n- ID resolution errors (lines 565, 570, 579)\n- Validation errors (lines 474, 515, 524, 545)\n- RPC/daemon errors (line 639+)\n- Store operation errors","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-25T13:32:06.867368-08:00","updated_at":"2025-12-25T13:40:38.388723-08:00","closed_at":"2025-12-25T13:40:38.388723-08:00","dependencies":[{"issue_id":"bd-28sq.1","depends_on_id":"bd-28sq","type":"parent-child","created_at":"2025-12-25T13:32:06.867875-08:00","created_by":"daemon"}]}
@@ -179,6 +180,7 @@
 {"id":"bd-2e80","title":"Document shared memory test isolation pattern in test_helpers.go","description":"Tests were failing because :memory: creates a shared database across all tests. The fix is to use \"file::memory:?mode=memory\u0026cache=private\" for test isolation.\n\nShould document this pattern in test_helpers.go and potentially update newTestStore to use private memory by default.","status":"closed","priority":3,"issue_type":"chore","created_at":"2025-11-01T22:40:58.993496-07:00","updated_at":"2025-11-02T16:40:27.354652-08:00","closed_at":"2025-11-02T16:40:27.354654-08:00"}
 {"id":"bd-2e94","title":"Support --parent flag in daemon mode","description":"Added support for hierarchical child issue creation using --parent flag in daemon mode. Previously only worked in direct mode.","status":"closed","priority":1,"issue_type":"feature","created_at":"2025-11-05T13:55:47.415771-08:00","updated_at":"2025-11-05T13:55:53.252342-08:00","closed_at":"2025-11-05T13:55:53.252342-08:00"}
 {"id":"bd-2em","title":"Expand checkHooksQuick to verify all hook versions","description":"Currently checkHooksQuick only checks post-merge hook version. Should also check pre-commit, pre-push, and post-checkout for completeness. Keep it lightweight but catch more outdated hooks.","status":"closed","priority":2,"issue_type":"task","created_at":"2025-11-25T19:27:47.432243-08:00","updated_at":"2025-11-25T19:50:21.378464-08:00","closed_at":"2025-11-25T19:50:21.378464-08:00"}
+{"id":"bd-2eoqm","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:24:33.405681-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:24:33.473536-08:00","closed_at":"2026-01-11T19:24:33.473536-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-2ep8","title":"Update CHANGELOG.md with release notes","description":"Add meaningful release notes to CHANGELOG.md describing what changed in 0.30.7","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-19T22:56:48.649053-08:00","updated_at":"2025-12-19T22:57:31.69559-08:00","closed_at":"2025-12-19T22:57:31.69559-08:00","dependencies":[{"issue_id":"bd-2ep8","depends_on_id":"bd-8pyn","type":"parent-child","created_at":"2025-12-19T22:56:48.650816-08:00","created_by":"stevey"},{"issue_id":"bd-2ep8","depends_on_id":"bd-rupw","type":"blocks","created_at":"2025-12-19T22:56:48.651136-08:00","created_by":"stevey"}]}
 {"id":"bd-2f0f","title":"Merge: obsidian-mjvtl03h","description":"branch: polecat/obsidian-mjvtl03h\ntarget: main\nsource_issue: obsidian-mjvtl03h\nrig: beads\nagent_bead: gt-beads-polecat-obsidian","status":"closed","priority":2,"issue_type":"merge-request","created_at":"2026-01-01T11:12:56.221323-08:00","created_by":"beads/polecats/obsidian","updated_at":"2026-01-01T15:48:48.262491-08:00","closed_at":"2026-01-01T15:48:48.262491-08:00","close_reason":"Branch already merged and deleted by previous refinery session"}
 {"id":"bd-2f388ca7","title":"Fix TestTwoCloneCollision timeout","status":"closed","priority":1,"issue_type":"bug","created_at":"2025-10-28T14:11:25.219607-07:00","updated_at":"2025-10-30T17:12:58.217635-07:00","closed_at":"2025-10-28T16:12:26.286611-07:00"}
@@ -232,6 +234,7 @@
 {"id":"bd-32nm","title":"Auto-configure git merge driver during `bd init`","description":"Enhance `bd init` to optionally set up beads-merge as git merge driver.\n\n**Tasks**:\n- Prompt user to install git merge driver\n- Configure `.git/config`: `merge.beads.driver \"bd merge %A %O %L %R\"`\n- Create/update `.gitattributes`: `.beads/beads.jsonl merge=beads`\n- Add `--skip-merge-driver` flag for non-interactive use\n- Update AGENTS.md onboarding section\n\n**Files**:\n- `cmd/bd/init.go`\n- `.gitattributes` template","status":"closed","priority":1,"issue_type":"task","created_at":"2025-11-05T18:42:20.447682-08:00","updated_at":"2025-11-05T19:27:18.370494-08:00","closed_at":"2025-11-05T19:27:18.370494-08:00","dependencies":[{"issue_id":"bd-32nm","depends_on_id":"bd-qqvw","type":"parent-child","created_at":"2025-11-05T18:42:28.723517-08:00","created_by":"daemon"},{"issue_id":"bd-32nm","depends_on_id":"bd-omx1","type":"blocks","created_at":"2025-11-05T18:42:35.453823-08:00","created_by":"daemon"}]}
 {"id":"bd-3396","title":"Add merge helper commands (bd sync --merge)","description":"Add commands to merge beads branch back to main.\n\nTasks:\n- Implement bd sync --merge command\n- Implement bd sync --status command\n- Implement bd sync --auto-merge (optional, for automation)\n- Detect merge conflicts and provide guidance\n- Show commit diff between branches\n- Verify main branch is clean before merge\n- Push merged changes to remote\n\nEstimated effort: 2-3 days","status":"closed","priority":1,"issue_type":"task","created_at":"2025-11-02T15:22:35.580873-08:00","updated_at":"2025-12-14T12:12:46.54978-08:00","closed_at":"2025-11-02T17:12:34.620486-08:00","dependencies":[{"issue_id":"bd-3396","depends_on_id":"bd-a101","type":"parent-child","created_at":"2025-11-02T15:22:48.376916-08:00","created_by":"stevey"}]}
 {"id":"bd-33ax","title":"Merge: granite-mjtmdru5","description":"branch: polecat/granite-mjtmdru5\ntarget: main\nsource_issue: granite-mjtmdru5\nrig: beads","status":"closed","priority":2,"issue_type":"merge-request","created_at":"2025-12-30T22:14:26.689691-08:00","created_by":"beads/polecats/granite","updated_at":"2026-01-01T10:43:18.625178-08:00","closed_at":"2026-01-01T10:43:18.625178-08:00","close_reason":"Stale MR - branch no longer exists on remote"}
+{"id":"bd-33v2x","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:27:40.608336-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:27:40.667183-08:00","closed_at":"2026-01-11T19:27:40.667183-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-3433","title":"Implement topological sort for import ordering","description":"Refactor upsertIssues() to sort issues by hierarchy depth before batch creation. Ensures parents are created before children, fixing latent bug where parent-child pairs in same batch can fail if ordered wrong. Sort by dot count, create in depth-order batches (0→1→2→3).","status":"closed","priority":0,"issue_type":"task","created_at":"2025-11-04T12:31:42.22005-08:00","updated_at":"2025-11-05T00:08:42.812154-08:00","closed_at":"2025-11-05T00:08:42.812156-08:00"}
 {"id":"bd-34q1","title":"Give --all flag actual meaning in bd list","description":"The --all flag exists but is currently a no-op ('flag provided for CLI familiarity'). Once we change the default to non-closed, --all should override to show all issues including closed.\n\nThis provides backwards compatibility for scripts that depend on seeing all issues.","notes":"## Implementation Plan\n\n### Code Changes (cmd/bd/list.go)\n\n1. **Update --all flag handling** (~line 889):\n```go\n// Currently: listCmd.Flags().Bool(\"all\", false, \"Show all issues (default behavior; flag provided for CLI familiarity)\")\n// Change to:\nlistCmd.Flags().Bool(\"all\", false, \"Show all issues including closed (overrides default filter)\")\n```\n\n2. **Check for --all in Run function** (before applying default filter):\n```go\nallFlag, _ := cmd.Flags().GetBool(\"all\")\nif status == \"\" \u0026\u0026 !allFlag {\n    // Apply default non-closed filter\n    filter.ExcludeStatus = []types.Status{\"closed\"}\n}\n// If --all is set, no ExcludeStatus applied = show everything\n```\n\n### Testing\n- `bd list --all` shows all issues including closed\n- `bd list` shows non-closed (from bd-mypl)\n- `bd list --all --status=open` - --all is ignored when explicit status given\n\n### Documentation\n- Update --help text\n- Add to migration guide: \"Use --all for previous default behavior\"","status":"closed","priority":2,"issue_type":"feature","created_at":"2025-12-29T15:25:07.522236-08:00","created_by":"stevey","updated_at":"2025-12-29T17:53:30.241263-08:00","closed_at":"2025-12-29T17:53:30.241263-08:00","close_reason":"Implemented in single commit","labels":["gh:788"],"dependencies":[{"issue_id":"bd-34q1","depends_on_id":"bd-mypl","type":"blocks","created_at":"2025-12-29T15:25:20.671576-08:00","created_by":"daemon"}]}
 {"id":"bd-35c7","title":"Add label-based filtering to bd ready command","description":"Allow filtering ready work by labels to help organize work by sprint, week, or category.\n\nExample usage:\n  bd ready --label week1-2\n  bd ready --label frontend,high-priority\n\nThis helps teams organize work into batches and makes it easier for agents to focus on specific categories of work.\n\nImplementation notes:\n- Add --label flag to ready command\n- Support comma-separated labels (AND logic)\n- Should work with existing ready work logic (unblocked issues)","status":"closed","priority":1,"issue_type":"feature","created_at":"2025-11-03T18:10:18.976536-08:00","updated_at":"2025-11-03T22:27:30.614911-08:00","closed_at":"2025-11-03T22:27:30.614911-08:00"}
@@ -292,6 +295,7 @@
 {"id":"bd-40a0","title":"bd doctor should check for multiple DBs, multiple JSONLs, daemon health","status":"closed","priority":1,"issue_type":"feature","created_at":"2025-10-31T21:16:47.042913-07:00","updated_at":"2025-10-31T21:21:27.093525-07:00","closed_at":"2025-10-31T21:21:27.093525-07:00"}
 {"id":"bd-40c2","title":"bd init --from-jsonl: Skip git history scan","description":"## Problem\n\n`bd init` scans git history to find all issues ever created, which:\n- Resurrects deleted/compacted issues\n- Takes a long time on large repos\n- Defeats manual JSONL cleanup\n\n## Solution\n\nAdd `bd init --from-jsonl` flag that:\n1. Creates fresh database\n2. Imports ONLY from current .beads/issues.jsonl\n3. Skips git history scan entirely\n\n## Use Case\n\nAfter manually cleaning JSONL or receiving a clean JSONL from another source:\n```bash\n# Clean JSONL manually or via script\nbd init --from-jsonl  # Use current JSONL as-is\n```\n\n(Moved from hq-c21fj)","status":"closed","priority":3,"issue_type":"feature","created_at":"2026-01-02T01:37:20.481211-08:00","created_by":"gastown/crew/joe","updated_at":"2026-01-02T12:41:30.784964-08:00","closed_at":"2026-01-02T12:41:30.784964-08:00","close_reason":"Duplicate of bd-c0b6"}
 {"id":"bd-40ceb","title":"Session ended: gt-beads-crew-emma","status":"closed","priority":2,"issue_type":"event","created_at":"2026-01-09T18:37:41.200328-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-09T18:37:41.240457-08:00","closed_at":"2026-01-09T18:37:41.240457-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
+{"id":"bd-40pnp","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:58:21.282415-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:58:21.331823-08:00","closed_at":"2026-01-11T19:58:21.331823-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-411u","title":"Document BEADS_DIR pattern for multi-agent workspaces (Gas Town)","description":"Gas Town and similar multi-agent systems need to configure separate beads databases per workspace/rig, distinct from any project-level beads.\n\n## Use Case\n\nIn Gas Town:\n- Each 'rig' (managed project) has multiple agents (polecats, refinery, witness)\n- All agents in a rig should share a single beads database at the rig level\n- This should be separate from any .beads/ the project itself uses\n- The BEADS_DIR env var enables this\n\n## Documentation Needed\n\n1. Add a section to docs explaining BEADS_DIR for multi-agent setups\n2. Example: setting BEADS_DIR in agent startup scripts/hooks\n3. Clarify interaction with project-level .beads/ (BEADS_DIR takes precedence)\n\n## Current Support\n\nAlready implemented in internal/beads/beads.go:FindDatabasePath():\n- BEADS_DIR env var is checked first (preferred)\n- BEADS_DB env var still supported (deprecated)\n- Falls back to .beads/ search in tree\n\nJust needs documentation for the multi-agent workspace pattern.","status":"hooked","priority":3,"issue_type":"task","created_at":"2025-12-15T22:08:22.158027-08:00","updated_at":"2025-12-30T15:44:43.351778-08:00"}
 {"id":"bd-43xj","title":"Add thread-safety warning to git.ResetCaches() doc comment","description":"Code review finding from bd-7di fix.\n\nResetCaches() reassigns sync.Once values which is not thread-safe. While this is only used in tests (which are single-threaded), the function is exported and could be misused.\n\nAdd a warning comment:\n```go\n// ResetCaches resets all cached git information.\n// WARNING: Not thread-safe. Only call from single-threaded test contexts.\n```\n\nFile: internal/git/gitdir.go","status":"closed","priority":4,"issue_type":"task","created_at":"2025-12-25T22:08:51.125399-08:00","updated_at":"2025-12-25T22:43:54.508097-08:00","closed_at":"2025-12-25T22:43:54.508097-08:00"}
 {"id":"bd-4462","title":"Test basic bd commands in WASM (init, create, list)","description":"Compile and verify basic bd functionality works in WASM:\n- Test bd init --quiet\n- Test bd create with simple issue\n- Test bd list --json output\n- Verify SQLite database creation and queries work\n- Document any runtime issues or workarounds needed","status":"closed","priority":1,"issue_type":"task","created_at":"2025-11-02T21:58:07.291771-08:00","updated_at":"2025-11-02T23:07:10.273212-08:00","closed_at":"2025-11-02T23:07:10.273212-08:00","dependencies":[{"issue_id":"bd-4462","depends_on_id":"bd-44d0","type":"parent-child","created_at":"2025-11-02T22:23:49.448668-08:00","created_by":"stevey"},{"issue_id":"bd-4462","depends_on_id":"bd-b4b0","type":"blocks","created_at":"2025-11-02T22:23:55.596771-08:00","created_by":"stevey"}]}
@@ -386,6 +390,7 @@
 {"id":"bd-589x","title":"HANDOFF: Version 0.30.7 release in progress","description":"## Context\nDoing a 0.30.7 patch release with bug fixes.\n\n## What's done\n- Fixed #657: bd graph nil pointer crash (graph.go:102)\n- Fixed #652: Windows npm installer file lock (postinstall.js)\n- Updated CHANGELOG.md and info.go\n- Pushed to main, CI running (run 20390861825)\n- Created version-bump molecule template (bd-6s61) and instantiated for 0.30.7 (bd-8pyn)\n\n## In progress\nMolecule bd-8pyn has 3 remaining tasks:\n  - bd-dxo7: Wait for CI to pass\n  - bd-7l70: Verify release artifacts  \n  - bd-5c91: Update local installation\n\n## Check CI\n  gh run list --repo steveyegge/beads --limit 1\n  gh run view 20390861825 --repo steveyegge/beads\n\n## New feature filed\nbd-n777: Timer beads for scheduled agent callbacks\nDesign for Deacon-managed timers that can interrupt agents via tmux\n\n## Resume commands\n  bd --no-daemon show bd-8pyn\n  gh run list --repo steveyegge/beads --limit 1","status":"closed","priority":2,"issue_type":"message","created_at":"2025-12-19T23:06:14.902334-08:00","updated_at":"2025-12-20T00:49:51.927111-08:00","closed_at":"2025-12-20T00:25:59.596546-08:00"}
 {"id":"bd-58c0","title":"Fix transaction conflict in TryResurrectParent","description":"Integration test TestImportWithDeletedParent fails with 'database is locked' error when resurrection happens inside CreateIssue.\n\nRoot cause: TryResurrectParent calls conn.Get() and insertIssue() which conflicts with existing transaction in CreateIssue.\n\nError: failed to create tombstone for parent bd-parent: failed to insert issue: sqlite3: database is locked\n\nSolution: Refactor resurrection to accept optional transaction parameter, use existing transaction when available instead of creating new connection.\n\nImpact: Blocks resurrection from working in CreateIssue flow, only works in EnsureIDs (which may not have active transaction).","status":"closed","priority":0,"issue_type":"bug","created_at":"2025-11-04T16:32:20.981027-08:00","updated_at":"2025-11-04T17:00:44.258881-08:00","closed_at":"2025-11-04T17:00:44.258881-08:00","dependencies":[{"issue_id":"bd-58c0","depends_on_id":"bd-d19a","type":"discovered-from","created_at":"2025-11-04T16:32:20.981969-08:00","created_by":"daemon"}]}
 {"id":"bd-59er","title":"Add --lock-timeout global flag","description":"Add new global flag to control SQLite busy_timeout.\n\n## Implementation\n1. Add to cmd/bd/main.go:\n   - `lockTimeout time.Duration` global variable  \n   - Register flag: `--lock-timeout=\u003cduration\u003e` (default 30s)\n\n2. Add config support in internal/config/config.go:\n   - `v.SetDefault(\"lock-timeout\", \"30s\")`\n   - Read from config.yaml if not set via flag\n\n3. Pass timeout to sqlite.New() - see next task\n\n## Acceptance Criteria\n- `bd --lock-timeout=0 list` fails immediately if DB is locked\n- `bd --lock-timeout=100ms list` waits max 100ms\n- Config file setting works: `lock-timeout: 100ms`\n- Default remains 30s for backward compatibility\n\nPart of bd-olc1","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-13T17:54:36.277179-08:00","updated_at":"2025-12-13T18:05:19.367765-08:00","closed_at":"2025-12-13T18:05:19.367765-08:00"}
+{"id":"bd-59h5f","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:58:12.449751-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T18:58:12.512659-08:00","closed_at":"2026-01-11T18:58:12.512659-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-5a90","title":"Test parent issue","status":"closed","priority":3,"issue_type":"task","created_at":"2025-12-14T12:12:46.530323-08:00","updated_at":"2025-12-14T12:12:46.530323-08:00","closed_at":"2025-12-13T23:29:56.878674-08:00"}
 {"id":"bd-5aad5a9c","title":"Add TestNWayCollision for 5+ clones","description":"## Overview\nAdd comprehensive tests for N-way (5+) collision resolution to verify the solution scales beyond 3 clones.\n\n## Purpose\nWhile TestThreeCloneCollision validates the basic N-way case, we need to verify:\n1. Solution scales to arbitrary N\n2. Performance is acceptable with more clones\n3. Convergence time is bounded\n4. No edge cases in larger collision groups\n\n## Implementation Tasks\n\n### 1. Create TestFiveCloneCollision\nFile: beads_twoclone_test.go (or new beads_nway_test.go)\n\n```go\nfunc TestFiveCloneCollision(t *testing.T) {\n    // Test with 5 clones creating same ID with different content\n    // Verify all 5 clones converge after sync rounds\n    \n    t.Run(\"SequentialSync\", func(t *testing.T) {\n        testNCloneCollision(t, 5, \"A\", \"B\", \"C\", \"D\", \"E\")\n    })\n    \n    t.Run(\"ReverseSync\", func(t *testing.T) {\n        testNCloneCollision(t, 5, \"E\", \"D\", \"C\", \"B\", \"A\")\n    })\n    \n    t.Run(\"RandomSync\", func(t *testing.T) {\n        testNCloneCollision(t, 5, \"C\", \"A\", \"E\", \"B\", \"D\")\n    })\n}\n```\n\n### 2. Implement generalized testNCloneCollision\nGeneralize the 3-clone test to handle arbitrary N:\n\n```go\nfunc testNCloneCollision(t *testing.T, numClones int, syncOrder ...string) {\n    t.Helper()\n    \n    if len(syncOrder) != numClones {\n        t.Fatalf(\"syncOrder length (%d) must match numClones (%d)\", \n            len(syncOrder), numClones)\n    }\n    \n    tmpDir := t.TempDir()\n    \n    // Setup remote and N clones\n    remoteDir := setupBareRepo(t, tmpDir)\n    cloneDirs := make(map[string]string)\n    \n    for i := 0; i \u003c numClones; i++ {\n        name := string(rune('A' + i))\n        cloneDirs[name] = setupClone(t, tmpDir, remoteDir, name)\n    }\n    \n    // Each clone creates issue with same ID but different content\n    for name, dir := range cloneDirs {\n        createIssue(t, dir, fmt.Sprintf(\"Issue from clone %s\", name))\n    }\n    \n    // Sync in specified order\n    for _, name := range syncOrder {\n        syncClone(t, cloneDirs[name], name)\n    }\n    \n    // Final pull for convergence\n    for name, dir := range cloneDirs {\n        finalPull(t, dir, name)\n    }\n    \n    // Verify all clones have all N issues\n    expectedTitles := make(map[string]bool)\n    for i := 0; i \u003c numClones; i++ {\n        name := string(rune('A' + i))\n        expectedTitles[fmt.Sprintf(\"Issue from clone %s\", name)] = true\n    }\n    \n    for name, dir := range cloneDirs {\n        titles := getTitles(t, dir)\n        if !compareTitleSets(titles, expectedTitles) {\n            t.Errorf(\"Clone %s missing issues: expected %v, got %v\", \n                name, expectedTitles, titles)\n        }\n    }\n    \n    t.Log(\"✓ All\", numClones, \"clones converged successfully\")\n}\n```\n\n### 3. Add performance benchmarks\nTest convergence time and memory usage:\n\n```go\nfunc BenchmarkNWayCollision(b *testing.B) {\n    for _, n := range []int{3, 5, 10, 20} {\n        b.Run(fmt.Sprintf(\"N=%d\", n), func(b *testing.B) {\n            for i := 0; i \u003c b.N; i++ {\n                // Run N-way collision and measure time\n                testNCloneCollisionBench(b, n)\n            }\n        })\n    }\n}\n```\n\n### 4. Add convergence time tests\nVerify bounded convergence:\n\n```go\nfunc TestConvergenceTime(t *testing.T) {\n    // Test that convergence happens within expected rounds\n    // For N clones, should converge in at most N-1 sync rounds\n    \n    for n := 3; n \u003c= 10; n++ {\n        t.Run(fmt.Sprintf(\"N=%d\", n), func(t *testing.T) {\n            rounds := measureConvergenceRounds(t, n)\n            maxExpected := n - 1\n            if rounds \u003e maxExpected {\n                t.Errorf(\"Convergence took %d rounds, expected ≤ %d\", \n                    rounds, maxExpected)\n            }\n        })\n    }\n}\n```\n\n### 5. Add edge case tests\nTest boundary conditions:\n- All N clones have identical content (dedup works)\n- N-1 clones have same content, 1 differs\n- All N clones have unique content\n- Mix of collisions and non-collisions\n\n## Acceptance Criteria\n- TestFiveCloneCollision passes with all sync orders\n- All 5 clones converge to identical content\n- Performance is acceptable (\u003c 5 seconds for 5 clones)\n- Convergence time is bounded (≤ N-1 rounds)\n- Edge cases handled correctly\n- Benchmarks show scalability to 10+ clones\n\n## Files to Create/Modify\n- beads_twoclone_test.go or beads_nway_test.go\n- Add helper functions for N-clone setup\n\n## Testing Strategy\n\n### Test Matrix\n| N Clones | Sync Orders | Expected Result |\n|----------|-------------|-----------------|\n| 3        | A→B→C       | Pass            |\n| 3        | C→B→A       | Pass            |\n| 5        | A→B→C→D→E   | Pass            |\n| 5        | E→D→C→B→A   | Pass            |\n| 5        | Random      | Pass            |\n| 10       | Sequential  | Pass            |\n\n### Performance Targets\n- 3 clones: \u003c 2 seconds\n- 5 clones: \u003c 5 seconds\n- 10 clones: \u003c 15 seconds\n\n## Dependencies\n- Requires bd-cbed9619.5, bd-cbed9619.4, bd-cbed9619.3, bd-dcd6f14b to be completed\n- TestThreeCloneCollision must pass first\n\n## Success Metrics\n- All tests pass for N ∈ {3, 5, 10}\n- Convergence time scales linearly (O(N))\n- Memory usage reasonable (\u003c 100MB for 10 clones)\n- No data corruption or loss in any scenario","status":"closed","priority":2,"issue_type":"task","created_at":"2025-10-29T19:52:05.462747-07:00","updated_at":"2025-10-31T12:00:43.198413-07:00","closed_at":"2025-10-31T12:00:43.198413-07:00"}
 {"id":"bd-5arw","title":"Fix remaining FK constraint failures in AddComment and ApplyCompaction","description":"Follow-up to PR #348 (Fix FOREIGN KEY constraint failed).\n\nThe initial fix addressed CloseIssue, UpdateIssueID, and RemoveLabel.\nHowever, `AddComment` (in internal/storage/sqlite/events.go) and `ApplyCompaction` (in internal/storage/sqlite/compact.go) still suffer from the same pattern: inserting an event after an UPDATE without verifying the UPDATE affected any rows.\n\nThis causes \"FOREIGN KEY constraint failed\" errors when operating on non-existent issues, instead of clean \"issue not found\" errors.\n\nTask:\n1. Apply the same fix pattern to `AddComment` and `ApplyCompaction`: check RowsAffected() after UPDATE and before event INSERT.\n2. Ensure error messages are consistent (\"issue %s not found\").\n3. Verify with reproduction tests (create a test that calls these methods with a non-existent ID).","status":"closed","priority":1,"issue_type":"task","created_at":"2025-11-20T09:53:38.314776-08:00","updated_at":"2025-11-20T11:25:04.698765-08:00","closed_at":"2025-11-20T11:25:04.698765-08:00"}
@@ -409,6 +414,7 @@
 {"id":"bd-5ibn","title":"Latency test 1","notes":"Resetting stale in_progress status from old executor run (yesterday)","status":"closed","priority":3,"issue_type":"task","created_at":"2025-11-20T12:16:30.703754-05:00","updated_at":"2025-12-14T00:32:11.04809-08:00","closed_at":"2025-12-13T23:29:56.878439-08:00"}
 {"id":"bd-5iv","title":"Test Epic","description":"## Overview\n\n[Describe the high-level goal and scope of this epic]\n\n## Success Criteria\n\n- [ ] Criteria 1\n- [ ] Criteria 2\n- [ ] Criteria 3\n\n## Background\n\n[Provide context and motivation]\n\n## Scope\n\n**In Scope:**\n- Item 1\n- Item 2\n\n**Out of Scope:**\n- Item 1\n- Item 2\n","status":"closed","priority":1,"issue_type":"epic","created_at":"2025-11-03T20:15:03.864229-08:00","updated_at":"2025-11-05T00:25:06.538749-08:00","closed_at":"2025-11-05T00:25:06.538749-08:00"}
 {"id":"bd-5jcch","title":"Session ended: gt-beads-crew-emma","status":"closed","priority":2,"issue_type":"event","created_at":"2026-01-07T19:01:32.13078-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-07T19:01:32.16821-08:00","closed_at":"2026-01-07T19:01:32.16821-08:00","close_reason":"auto-closed session event"}
+{"id":"bd-5jmmr","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:37:43.085685-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:37:43.151117-08:00","closed_at":"2026-01-11T19:37:43.151117-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-5ki8","title":"Add integration tests for adapter library","description":"Test suite for beads_mail_adapter.py covering all scenarios.\n\nAcceptance Criteria:\n- Test enabled mode (server available)\n- Test disabled mode (server unavailable)\n- Test graceful degradation (server dies mid-operation)\n- Test reservation conflicts\n- Test message sending/receiving\n- Mock HTTP server for testing\n- 90%+ code coverage\n\nFile: lib/test_beads_mail_adapter.py","notes":"Test suite completed with 29 comprehensive tests covering:\n- Enabled mode (server available): 10 tests\n- Disabled mode (server unavailable): 2 tests  \n- Graceful degradation: 4 tests\n- Reservation conflicts: 2 tests\n- Configuration: 5 tests\n- Health check scenarios: 3 tests\n- HTTP error handling: 3 tests\n\n**Performance**: All tests run in 10ms (fast!)\n\n**Coverage highlights**:\n✅ Server health checks (ok, degraded, error, timeout)\n✅ All API operations (reserve, release, notify, check_inbox, get_reservations)\n✅ HTTP errors (404, 409 conflict, 500, 503)\n✅ Network errors (timeout, connection refused)\n✅ Malformed responses (bad JSON, empty body, plain text errors)\n✅ Environment variable configuration\n✅ Graceful degradation when server dies mid-operation\n✅ Conflict handling with both JSON and plain text errors\n✅ Dict wrapper responses ({\"messages\": [...]} and {\"reservations\": [...]})\n✅ Custom TTL for reservations\n✅ Default agent name fallback\n\nNo external dependencies, no slow integration tests, just fast unit tests with mocks.","status":"closed","priority":1,"issue_type":"task","created_at":"2025-11-07T22:43:21.294596-08:00","updated_at":"2025-11-08T01:32:39.906342-08:00","closed_at":"2025-11-08T01:32:39.906342-08:00","dependencies":[{"issue_id":"bd-5ki8","depends_on_id":"bd-m9th","type":"blocks","created_at":"2025-11-07T22:43:21.296024-08:00","created_by":"daemon"}]}
 {"id":"bd-5kkec","title":"Document bd mol ready --gated in README","description":"New gate-resume discovery command (bd-lhalq) is not documented in README.md. Should add to command reference with examples.","status":"open","priority":3,"issue_type":"task","created_at":"2026-01-08T21:32:38.528711-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-08T21:32:38.528711-08:00","dependencies":[{"issue_id":"bd-5kkec","depends_on_id":"bd-ka761","type":"discovered-from","created_at":"2026-01-08T21:32:43.629165-08:00","created_by":"beads/crew/emma"}]}
 {"id":"bd-5l59","title":"Code smell: Issue struct is a God Object (50+ fields)","description":"attached_args: Refactor Issue struct God Object\n\nThe Issue struct in internal/types/types.go has 50+ fields covering many different concerns:\n\n- Basic issue tracking (ID, Title, Description, Status, Priority)\n- Messaging/communication (Sender, Ephemeral, etc.)\n- Agent identity (HookBead, RoleBead, AgentState, RoleType, Rig)\n- Gate/async coordination (AwaitType, AwaitID, Timeout, Waiters)\n- Source tracing (SourceFormula, SourceLocation)\n- HOP validation/entities (Creator, Validations)\n- Compaction (CompactionLevel, CompactedAt, OriginalSize)\n- Tombstones (DeletedAt, DeletedBy, DeleteReason)\n\nConsider:\n1. Extracting field groups into embedded structs (e.g., AgentFields, GateFields)\n2. Using composition pattern to make the struct more modular\n3. At minimum, grouping related fields together with section comments\n\nLocation: internal/types/types.go:12-82","status":"closed","priority":3,"issue_type":"chore","created_at":"2025-12-28T15:31:34.021236-08:00","created_by":"beads/crew/dave","updated_at":"2025-12-28T16:41:07.721864-08:00","closed_at":"2025-12-28T16:41:07.721864-08:00","dependencies":[{"issue_id":"bd-5l59","depends_on_id":"bd-784c","type":"parent-child","created_at":"2025-12-28T15:38:04.187103-08:00","created_by":"daemon"}]}
@@ -561,6 +567,7 @@
 {"id":"bd-7l67","title":"Add bd state and bd set-state helper commands","description":"Convenience commands for the labels-as-state pattern documented in LABELS.md.\n\n`bd state \u003crole\u003e \u003cdimension\u003e` - Query the current value of a state dimension\nExample: bd state witness-alpha patrol → outputs: active\n\n`bd set-state \u003crole\u003e \u003cdimension\u003e=\u003cvalue\u003e [--reason \"...\"]` - Atomically creates an event bead and updates the label\nExample: bd set-state witness-alpha patrol=muted --reason \"Investigating stuck polecat\"\n\nThis would combine the manual steps:\n1. bd create \"\u003creason\u003e\" -t event --parent \u003crole\u003e\n2. bd label remove \u003crole\u003e \u003cdimension\u003e:\u003cold-value\u003e\n3. bd label add \u003crole\u003e \u003cdimension\u003e:\u003cnew-value\u003e\n\nInto a single atomic operation.\n\nDiscovered from: bd-31ae","status":"closed","priority":3,"issue_type":"feature","created_at":"2025-12-30T15:46:40.679911-08:00","created_by":"stevey","updated_at":"2025-12-30T15:56:44.713687-08:00","closed_at":"2025-12-30T15:56:44.713687-08:00","close_reason":"Implemented bd state and bd set-state commands with tests and documentation","dependencies":[{"issue_id":"bd-7l67","depends_on_id":"bd-31ae","type":"discovered-from","created_at":"2025-12-30T15:46:50.184553-08:00","created_by":"stevey"}]}
 {"id":"bd-7m0d2","title":"Formula parser: recognize gate step fields","description":"Add support for gate-related fields in formula step definitions:\n\n- `gate`: Gate type (gh:run, gh:pr, timer, bead, human)\n- `gate_hint`: Optional hint for auto-discovery (e.g., workflow name)\n- `timeout`: Duration before escalation\n\nUpdate internal/formula/types.go and parser.go to recognize these fields.\n\nParent: bd-ka761","status":"closed","priority":1,"issue_type":"task","created_at":"2026-01-08T20:53:33.353399-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-08T21:09:12.222082-08:00","closed_at":"2026-01-08T21:09:12.222082-08:00","close_reason":"Already implemented: Gate struct exists in types.go with Type/ID/Timeout fields, Step.Gate field exists, parser handles JSON/TOML correctly, comprehensive tests exist in parser_test.go and cook_test.go","dependencies":[{"issue_id":"bd-7m0d2","depends_on_id":"bd-ka761","type":"parent-child","created_at":"2026-01-08T20:54:03.992343-08:00","created_by":"beads/crew/emma"}]}
 {"id":"bd-7m16","title":"GH#519: bd sync fails when sync.branch is currently checked-out branch","description":"bd sync tries to create worktree for sync.branch even when already on that branch. Should commit directly instead. See GitHub issue #519.","status":"tombstone","priority":2,"issue_type":"bug","created_at":"2025-12-16T01:03:36.613211-08:00","updated_at":"2025-12-17T16:11:17.070763-08:00","deleted_at":"2025-12-17T16:11:17.070763-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"bug"}
+{"id":"bd-7mquj","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:53:50.253589-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:53:50.322846-08:00","closed_at":"2026-01-11T19:53:50.322846-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-7p5l","title":"Fix N+1 query pattern in swarm status blocked check","description":"In getSwarmStatus, when checking if an issue is blocked, we query each dependency individually with GetIssue. With 100 issues and 5 deps each, thats 500 extra queries. Fix: Build a status map upfront from the already-fetched childIssues slice. File: cmd/bd/swarm.go:706-710","status":"closed","priority":2,"issue_type":"bug","created_at":"2025-12-28T21:31:07.586335-08:00","created_by":"beads/crew/emma","updated_at":"2025-12-28T21:35:30.605065-08:00","closed_at":"2025-12-28T21:35:30.605065-08:00","dependencies":[{"issue_id":"bd-7p5l","depends_on_id":"bd-m6r3","type":"blocks","created_at":"2025-12-28T21:31:17.309538-08:00","created_by":"daemon"}]}
 {"id":"bd-7pwh","title":"HOP-compatible schema additions","description":"Add optional fields to Beads schema to enable future HOP integration.\nAll fields are backwards-compatible (optional, omitted if empty).\n\n## Reference\nSee ~/gt/docs/hop/BEADS-SCHEMA-CHANGES.md for full specification.\n\n## P1 Changes (Must Have Before Launch)\n\n### 1. EntityRef type\nStructured entity reference that can become HOP URI:\n```go\ntype EntityRef struct {\n    Name     string // \"polecat/Nux\"\n    Platform string // \"gastown\"\n    Org      string // \"steveyegge\"  \n    ID       string // \"polecat-nux\"\n}\n```\n\n### 2. creator field\nEvery issue tracks who created it (EntityRef).\n\n### 3. assignee_ref field\nStructured form alongside existing string assignee.\n\n### 4. validations array\nTrack who validated work completion:\n```go\ntype Validation struct {\n    Validator *EntityRef\n    Outcome   string    // accepted, rejected, revision_requested\n    Timestamp time.Time\n    Score     *float32  // Future\n}\n```\n\n## P2 Changes (Should Have)\n\n### 5. work_type field\n\"mutex\" (default) or \"open_competition\"\n\n### 6. crystallizes field\nBoolean - does this work compound (true) or evaporate (false)?\n\n### 7. cross_refs field\nArray of URIs to beads in other repos:\n- \"beads://github/anthropics/claude-code/bd-xyz\"\n\n## P3 Changes (Nice to Have)\n\n### 8. skill_vector placeholder\nReserved for future embeddings: []float32\n\n## Implementation Notes\n- All fields optional in JSONL serialization\n- Empty/null fields omit from output\n- No migration needed for existing data\n- CLI additions: --creator, --validated-by filters","notes":"Scope reduced after review. P1 only: EntityRef type, creator field, validations array. Deferred: assignee_ref, work_type, crystallizes, cross_refs, skill_vector (YAGNI - semantics unclear, can add later when needed).","status":"closed","priority":1,"issue_type":"epic","created_at":"2025-12-22T02:42:39.267984-08:00","updated_at":"2025-12-22T20:09:09.211821-08:00","closed_at":"2025-12-22T20:09:09.211821-08:00"}
 {"id":"bd-7r4l","title":"GH#488: Support claude.local.md for local-only config","description":"Allow CLAUDE.local.md for testing bd without committing to repo or overriding shared CLAUDE.md. Not every repo wants committed AI config. See: https://github.com/steveyegge/beads/issues/488","status":"closed","priority":2,"issue_type":"feature","created_at":"2025-12-14T16:32:19.944847-08:00","updated_at":"2025-12-16T01:17:26.116311-08:00","closed_at":"2025-12-14T17:29:34.624157-08:00"}
@@ -705,6 +712,7 @@
 {"id":"bd-9w27m","title":"Digest: mol-refinery-patrol","description":"Patrol: MQ empty, no branches processed","status":"closed","priority":2,"issue_type":"task","created_at":"2026-01-10T20:03:47.544242-08:00","updated_at":"2026-01-10T20:03:47.544242-08:00","closed_at":"2026-01-10T20:03:47.544205-08:00","close_reason":"Squashed from 11 wisps","dependencies":[{"issue_id":"bd-9w27m","depends_on_id":"bd-wisp-ddw","type":"parent-child","created_at":"2026-01-10T20:03:47.545186-08:00","created_by":"beads/refinery"}]}
 {"id":"bd-9w3s","title":"Improve test coverage for internal/lockfile (42.0% → 60%)","description":"The lockfile package has only 42.0% test coverage. Lock file handling is critical for preventing data corruption in concurrent scenarios.\n\nCurrent coverage: 42.0%\nTarget coverage: 60%","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-13T20:43:08.47488-08:00","updated_at":"2025-12-15T16:12:59.163093-08:00","closed_at":"2025-12-14T15:20:51.463282-08:00"}
 {"id":"bd-9yvw","title":"Merge: flint-mjtmdf12","description":"branch: polecat/flint-mjtmdf12\ntarget: main\nsource_issue: flint-mjtmdf12\nrig: beads","status":"closed","priority":2,"issue_type":"merge-request","created_at":"2025-12-30T22:20:42.246333-08:00","created_by":"beads/polecats/flint","updated_at":"2026-01-01T10:43:18.620902-08:00","closed_at":"2026-01-01T10:43:18.620902-08:00","close_reason":"Stale MR - branch no longer exists on remote"}
+{"id":"bd-a02wr","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:54:42.032755-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T18:54:42.100213-08:00","closed_at":"2026-01-11T18:54:42.100213-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-a03d5e36","title":"Improve integration test coverage for stateful features","status":"closed","priority":2,"issue_type":"epic","created_at":"2025-10-29T21:53:15.397137-07:00","updated_at":"2025-12-14T12:12:46.508474-08:00","closed_at":"2025-11-08T00:36:59.02371-08:00"}
 {"id":"bd-a0cp","title":"Consider using types.Status in merge package for type safety","description":"The merge package uses string for status comparison (e.g., result.Status == closed, issue.Status == StatusTombstone). The types package defines Status as a type alias with validation. While the merge package needs its own Issue struct for JSONL flexibility, it could import and use types.Status for constants to get compile-time type checking. Current code: if left == closed || right == closed. Could be: if left == string(types.StatusClosed). This is low priority since string comparison works correctly. Files: internal/merge/merge.go:44, 488, 501-521","status":"closed","priority":4,"issue_type":"task","created_at":"2025-12-05T16:37:10.690424-08:00","updated_at":"2025-12-30T18:12:30.980592-08:00","closed_at":"2025-12-30T15:54:45.570222-08:00","close_reason":"Added StatusClosed constant derived from types.StatusClosed and replaced hardcoded strings with the constant for type safety"}
 {"id":"bd-a101","title":"Support separate branch for beads commits","description":"Allow beads to commit to a separate branch (e.g., beads-metadata) using git worktrees to support protected main branch workflows.\n\nSolves GitHub Issue #205 - Users need to protect main branch while maintaining beads workflow.\n\nKey advantages:\n- Works on any git platform\n- Main branch stays protected  \n- No disruption to user's working directory\n- Backward compatible (opt-in via config)\n- Minimal disk overhead (sparse checkout)\n\nTotal estimate: 17-24 days (4-6 weeks with parallel work)","status":"closed","priority":1,"issue_type":"epic","created_at":"2025-11-02T15:21:20.098247-08:00","updated_at":"2025-12-14T12:12:46.531342-08:00","closed_at":"2025-11-04T12:36:53.772727-08:00"}
@@ -815,7 +823,7 @@
 {"id":"bd-bdhn","title":"bd message: Add input validation for --importance flag","description":"The --importance flag accepts any string without validation, leading to confusing server errors.\n\n**Location:** cmd/bd/message.go:256-258\n\n**Fix:**\n- Add flag validation for: low, normal, high, urgent\n- Add shell completion support\n- Validate in runMessageSend before sending\n\n**Impact:** Better UX, prevents confusing errors","status":"closed","priority":1,"issue_type":"bug","created_at":"2025-11-08T12:54:26.43027-08:00","updated_at":"2025-11-08T12:57:59.65367-08:00","closed_at":"2025-11-08T12:57:59.65367-08:00","dependencies":[{"issue_id":"bd-bdhn","depends_on_id":"bd-6uix","type":"parent-child","created_at":"2025-11-08T12:55:54.910841-08:00","created_by":"daemon"}]}
 {"id":"bd-bdmwf","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","created_at":"2026-01-11T00:21:01.891501-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T00:21:01.932445-08:00","closed_at":"2026-01-11T00:21:01.932445-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-be7a","title":"Create npm package structure with package.json","description":"Set up initial npm package structure for @beads/bd:\n\n## Files to create\n- npm/package.json - Package metadata, dependencies, scripts\n- npm/bin/bd - CLI wrapper script that invokes native binary\n- npm/.gitignore - Ignore downloaded binaries\n- npm/README.md - Installation and usage instructions\n\n## package.json structure\n- Name: @beads/bd (scoped package)\n- Main: index.js (exports binary path)\n- Bin: bin/bd (CLI entry point)\n- Scripts: postinstall (download binary)\n- Keywords: issue-tracker, cli, beads, bd\n- License: MIT\n\n## Bin wrapper\nSimple Node.js script that:\n- Spawns native binary with child_process.spawn\n- Passes through all arguments and stdio\n- Exits with binary's exit code","status":"closed","priority":1,"issue_type":"task","created_at":"2025-11-02T23:39:47.416779-08:00","updated_at":"2025-11-03T10:31:45.381258-08:00","closed_at":"2025-11-03T10:31:45.381258-08:00","dependencies":[{"issue_id":"bd-be7a","depends_on_id":"bd-febc","type":"parent-child","created_at":"2025-11-02T23:40:32.923859-08:00","created_by":"daemon"}]}
-{"id":"bd-beads-crew-dave","title":"Crew worker dave in beads - human-managed persistent workspace.","description":"Crew worker dave in beads - human-managed persistent workspace.\n\nrole_type: crew\nrig: beads\nagent_state: idle\nhook_bead: null\nrole_bead: gt-crew-role\ncleanup_status: null","status":"open","priority":2,"issue_type":"agent","created_at":"2025-12-30T23:14:04.538389-08:00","created_by":"deacon","updated_at":"2026-01-11T18:26:26.922229-08:00"}
+{"id":"bd-beads-crew-dave","title":"Crew worker dave in beads - human-managed persistent workspace.","description":"Crew worker dave in beads - human-managed persistent workspace.\n\nrole_type: crew\nrig: beads\nagent_state: idle\nhook_bead: null\nrole_bead: gt-crew-role\ncleanup_status: null","status":"open","priority":2,"issue_type":"agent","created_at":"2025-12-30T23:14:04.538389-08:00","created_by":"deacon","updated_at":"2026-01-11T18:45:32.672408-08:00"}
 {"id":"bd-beads-crew-emma","title":"Crew worker emma in beads - human-managed persistent workspace.","description":"Crew worker emma in beads - human-managed persistent workspace.\n\nrole_type: crew\nrig: beads\nagent_state: idle\nhook_bead: null\nrole_bead: gt-crew-role\ncleanup_status: null","status":"open","priority":2,"issue_type":"agent","created_at":"2025-12-30T23:14:04.604042-08:00","created_by":"deacon","updated_at":"2026-01-06T23:51:55.013518-08:00"}
 {"id":"bd-beads-crew-fang","title":"Crew worker fang in beads - human-managed persistent workspace.","description":"Crew worker fang in beads - human-managed persistent workspace.\n\nrole_type: crew\nrig: beads\nagent_state: idle\nhook_bead: null\nrole_bead: gt-crew-role\ncleanup_status: null","status":"open","priority":2,"issue_type":"agent","created_at":"2025-12-30T23:14:04.672037-08:00","created_by":"deacon","updated_at":"2026-01-11T18:09:25.79245-08:00"}
 {"id":"bd-beads-crew-giles","title":"Crew worker giles in beads - human-managed persistent workspace.","description":"Crew worker giles in beads - human-managed persistent workspace.\n\nrole_type: crew\nrig: beads\nagent_state: idle\nhook_bead: null\nrole_bead: gt-crew-role\ncleanup_status: null\nactive_mr: null\nnotification_level: null","status":"open","priority":2,"issue_type":"agent","created_at":"2026-01-04T11:22:11.009942-08:00","created_by":"mayor","updated_at":"2026-01-11T18:17:46.971272-08:00"}
@@ -884,6 +892,7 @@
 {"id":"bd-c362","title":"Extract database search logic into helper function","description":"The logic for finding a database in a beads directory is duplicated:\n- FindDatabasePath() BEADS_DIR section (beads.go:141-169)\n- findDatabaseInTree() (beads.go:248-280)\n\nBoth implement the same search order:\n1. Check config.json first (single source of truth)\n2. Fall back to canonical beads.db\n3. Search for *.db files, filtering backups and vc.db\n\nRefactoring suggestion:\nExtract to a helper function like:\n  func findDatabaseInBeadsDir(beadsDir string) string\n\nBenefits:\n- Single source of truth for database search logic\n- Easier to maintain and update search order\n- Reduces code duplication\n\nRelated to [deleted:bd-e16b] implementation.","status":"closed","priority":3,"issue_type":"chore","created_at":"2025-11-02T18:34:02.831543-08:00","updated_at":"2025-12-09T18:38:37.685269872-05:00","closed_at":"2025-11-25T22:27:33.794656-08:00","dependencies":[{"issue_id":"bd-c362","depends_on_id":"bd-e16b","type":"blocks","created_at":"2025-11-02T18:34:02.832607-08:00","created_by":"daemon"}]}
 {"id":"bd-c3ei","title":"Migration guide documentation","description":"Write comprehensive migration guide covering: OSS contributor workflow, team workflow, multi-phase development, multiple personas. Include step-by-step instructions, troubleshooting, and backward compatibility notes.","status":"closed","priority":1,"issue_type":"task","created_at":"2025-11-05T18:04:29.84662-08:00","updated_at":"2025-11-05T18:12:30.907835-08:00","closed_at":"2025-11-05T18:12:30.907835-08:00","dependencies":[{"issue_id":"bd-c3ei","depends_on_id":"bd-8rd","type":"parent-child","created_at":"2025-11-05T18:04:39.028291-08:00","created_by":"daemon"}]}
 {"id":"bd-c3u","title":"Review PR #512: clarify bd ready docs","description":"Review and merge PR #512 from aspiers. This PR clarifies what bd ready does after git pull in README.md. Simple 1-line change. URL: https://github.com/anthropics/beads/pull/512","status":"tombstone","priority":2,"issue_type":"task","created_at":"2025-12-13T08:15:13.405161+11:00","updated_at":"2025-12-25T01:21:01.952723-08:00","deleted_at":"2025-12-25T01:21:01.952723-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"task"}
+{"id":"bd-c3yrt","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:50:52.023371-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:50:52.091503-08:00","closed_at":"2026-01-11T19:50:52.091503-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-c49","title":"Audit all cmd/bd tests and group into suites","description":"Analyze all 279 tests in cmd/bd and identify:\n1. Which tests can share DB setup (most of them\\!)\n2. Which tests actually need isolation (export/import, git ops)\n3. Optimal grouping into test suites\n\nCreate a mapping document showing:\n- Current: 279 individual test functions\n- Proposed: ~10-15 test suites with subtests\n- Expected speedup per suite\n\nBlocks all refactoring work.","status":"closed","priority":1,"issue_type":"task","created_at":"2025-11-21T11:49:19.438242-05:00","updated_at":"2025-11-21T16:07:50.846006-05:00","closed_at":"2025-11-21T15:15:29.50544-05:00"}
 {"id":"bd-c4nfq","title":"Review PR #16929: Respect --comment flag","description":"dispatched_by: beads/crew/emma\n\nReview and verify PR #16929 (anthropics/claude-code)\n\nPR: https://github.com/anthropics/claude-code/pull/16929\nAuthor: heathdutton\nFixes: #16606\n\nThe /code-review command was posting inline comments by default, but README says terminal output is default.\n- gh pr view 16929 --repo anthropics/claude-code\n- gh pr diff 16929 --repo anthropics/claude-code\n- If good: gh pr merge 16929 --repo anthropics/claude-code --squash","status":"closed","priority":2,"issue_type":"task","assignee":"beads/crew/wolf","created_at":"2026-01-08T14:20:29.469584-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-08T14:29:35.606395-08:00","closed_at":"2026-01-08T14:29:35.606395-08:00","close_reason":"Wrong repo - these were for anthropics/claude-code, not steveyegge/beads"}
 {"id":"bd-c4rq","title":"Refactor: Move staleness check inside daemon branch","description":"## Problem\n\nCurrently ensureDatabaseFresh() is called before the daemon mode check, but it checks daemonClient != nil internally and returns early. This is redundant.\n\n**Location:** All read commands (list.go:196, show.go:27, ready.go:102, status.go:80, etc.)\n\n## Current Pattern\n\nCall happens before daemon check, function checks daemonClient internally.\n\n## Better Pattern\n\nMove staleness check to direct mode branch only, after daemon check.\n\n## Impact\nLow - minor performance improvement (avoids one function call per command in daemon mode)\n\n## Effort\nMedium - requires refactoring 8 command files\n\n## Priority\nLow - can defer to future cleanup PR","status":"closed","priority":3,"issue_type":"chore","created_at":"2025-11-20T20:17:45.119583-05:00","updated_at":"2025-12-09T18:38:37.686612072-05:00","closed_at":"2025-11-28T23:37:52.276192-08:00"}
@@ -929,8 +938,10 @@
 {"id":"bd-cjxp","title":"Bug P0","status":"closed","priority":0,"issue_type":"bug","created_at":"2025-11-07T19:00:22.536449-08:00","updated_at":"2025-11-07T22:07:17.345535-08:00","closed_at":"2025-11-07T21:55:09.429643-08:00"}
 {"id":"bd-ckvw","title":"Add schema compatibility probe to prevent silent migration failures","description":"Issue #262 revealed a serious bug: migrations may fail silently, causing UNIQUE constraint errors later.\n\nRoot cause:\n- sqlite.New() runs migrations once on open\n- checkVersionMismatch() prints 'database will be upgraded automatically' but only updates metadata\n- If migrations fail or daemon runs older version, queries expecting new columns fail with 'no such column'\n- Import logic misinterprets this as 'not found' and tries INSERT on existing ID\n- Result: UNIQUE constraint failed: issues.id\n\nFix strategy (minimal):\n1. Add schema probe in sqlite.New() after RunMigrations\n   - SELECT all expected columns from all tables with LIMIT 0\n   - If fails, retry RunMigrations and probe again\n   - If still fails, return fatal error with clear message\n2. Fix checkVersionMismatch to not claim 'will upgrade' unless probe passes\n3. Only update bd_version after successful migration probe\n4. Add schema verification before import operations\n5. Map 'no such column' errors to clear actionable message\n\nRelated: #262","status":"closed","priority":0,"issue_type":"bug","created_at":"2025-11-08T13:23:26.934246-08:00","updated_at":"2025-11-08T13:53:29.219542-08:00","closed_at":"2025-11-08T13:53:29.219542-08:00"}
 {"id":"bd-cl1o","title":"Merge: obsidian-mjw4b7ph","description":"branch: polecat/obsidian-mjw4b7ph\ntarget: main\nsource_issue: obsidian-mjw4b7ph\nrig: beads\nagent_bead: gt-beads-polecat-obsidian","status":"closed","priority":2,"issue_type":"merge-request","created_at":"2026-01-01T16:17:26.585696-08:00","created_by":"beads/polecats/obsidian","updated_at":"2026-01-01T16:19:26.187-08:00","closed_at":"2026-01-01T16:19:26.187-08:00","close_reason":"Branch dropped during rebase - changes already in main"}
+{"id":"bd-clryf","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:18:02.054712-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:18:02.121754-08:00","closed_at":"2026-01-11T19:18:02.121754-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-cm5g","title":"Merge: basalt-mjtme50i","description":"branch: polecat/basalt-mjtme50i\ntarget: main\nsource_issue: basalt-mjtme50i\nrig: beads","status":"closed","priority":2,"issue_type":"merge-request","created_at":"2025-12-30T22:20:38.32952-08:00","created_by":"beads/polecats/basalt","updated_at":"2026-01-01T10:43:18.622647-08:00","closed_at":"2026-01-01T10:43:18.622647-08:00","close_reason":"Stale MR - branch no longer exists on remote"}
 {"id":"bd-cmdfo","title":"Assigned issue","status":"open","priority":1,"issue_type":"task","assignee":"testuser","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:16:02.343011-08:00","created_by":"beads/crew/wolf","updated_at":"2026-01-11T18:16:02.343011-08:00"}
+{"id":"bd-cmqzz","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:14:19.936945-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:14:20.002371-08:00","closed_at":"2026-01-11T19:14:20.002371-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-cn56","title":"Update merge_slot.go to use labels instead of type","description":"Change merge slot bead management to use gt:slot label instead of TypeSlot.\n\n## Work\n- Change IssueType=slot to IssueType=task when creating slots\n- Add gt:slot label when creating slot beads  \n\n## Files\n- cmd/bd/merge_slot.go","status":"closed","priority":2,"issue_type":"task","created_at":"2026-01-06T20:40:21.878624-08:00","created_by":"beads/crew/dave","updated_at":"2026-01-06T22:11:03.563553-08:00","closed_at":"2026-01-06T22:11:03.563553-08:00","close_reason":"Migrated merge_slot.go to use gt:slot label instead of type","dependencies":[{"issue_id":"bd-cn56","depends_on_id":"bd-i54l","type":"parent-child","created_at":"2026-01-06T20:41:11.610957-08:00","created_by":"beads/crew/dave"}]}
 {"id":"bd-cnwx","title":"Refactor mol.go: split 1200+ line file into subcommands","description":"## Problem\n\ncmd/bd/mol.go has grown to 1200+ lines with all molecule subcommands in one file.\n\n## Current State\n- mol.go: 1218 lines (bond, spawn, run, distill, catalog, show, etc.)\n- Hard to navigate, review, and maintain\n\n## Proposed Structure\nSplit into separate files by subcommand:\n```\ncmd/bd/\n├── mol.go           # Root command, shared helpers\n├── mol_bond.go      # bd mol bond\n├── mol_spawn.go     # bd mol spawn  \n├── mol_run.go       # bd mol run\n├── mol_distill.go   # bd mol distill\n├── mol_catalog.go   # bd mol catalog\n├── mol_show.go      # bd mol show\n└── mol_test.go      # Tests (already separate)\n```\n\n## Benefits\n- Easier code review\n- Better separation of concerns\n- Simpler navigation\n- Each subcommand self-contained","status":"closed","priority":2,"issue_type":"chore","created_at":"2025-12-21T11:30:58.832192-08:00","updated_at":"2025-12-21T11:42:49.390824-08:00","closed_at":"2025-12-21T11:42:49.390824-08:00"}
 {"id":"bd-co29","title":"Merge: bd-n386","description":"branch: polecat/immortan\ntarget: main\nsource_issue: bd-n386\nrig: beads","status":"closed","priority":2,"issue_type":"merge-request","created_at":"2025-12-23T20:41:45.644113-08:00","updated_at":"2025-12-23T21:21:57.70152-08:00","closed_at":"2025-12-23T21:21:57.70152-08:00"}
@@ -1027,7 +1038,7 @@
 {"id":"bd-e1085716","title":"bd validate - Comprehensive health check","description":"Run all validation checks in one command.\n\nChecks:\n- Duplicates\n- Orphaned dependencies\n- Test pollution\n- Git conflicts\n\nSupports --fix-all for auto-repair.\n\nDepends on bd-cbed9619.1, bd-0dcea000, bd-31aab707, bd-9826b69a.\n\nFiles: cmd/bd/validate.go (new)","status":"tombstone","priority":1,"issue_type":"task","created_at":"2025-10-29T23:05:13.980679-07:00","updated_at":"2025-12-25T01:21:01.952723-08:00","deleted_at":"2025-12-25T01:21:01.952723-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"task"}
 {"id":"bd-e166","title":"Improve timestamp comparison readability in import","description":"The timestamp comparison logic uses double-negative which can be confusing:\n\nCurrent code:\nif !incoming.UpdatedAt.After(existing.UpdatedAt) {\n    // skip update\n}\n\nMore readable:\nif incoming.UpdatedAt.After(existing.UpdatedAt) {\n    // perform update\n} else {\n    // skip (local is newer)\n}\n\nThis is a minor refactor for code clarity.\n\nRelated: bd-1022\nFiles: internal/importer/importer.go:411, 488","status":"closed","priority":4,"issue_type":"chore","created_at":"2025-11-02T15:32:12.27108-08:00","updated_at":"2025-12-09T18:38:37.688877572-05:00","closed_at":"2025-11-26T22:25:27.124071-08:00"}
 {"id":"bd-e16b","title":"Replace BEADS_DB with BEADS_DIR environment variable","description":"Implement BEADS_DIR as a replacement for BEADS_DB to point to the .beads directory instead of the database file directly.\n\nRationale:\n- With --no-db mode, there's no .db file to point to\n- The .beads directory is the logical unit (contains config.yaml, db files, jsonl files)\n- More intuitive: point to the beads directory not the database file\n\nImplementation:\n1. Add BEADS_DIR environment variable support\n2. Maintain backward compatibility with BEADS_DB\n3. Priority order: BEADS_DIR \u003e BEADS_DB \u003e auto-discovery\n4. If BEADS_DIR is set, look for config.yaml in that directory to find actual database path\n5. Update documentation and migration guide\n\nFiles to modify:\n- beads.go (FindDatabasePath function)\n- cmd/bd/main.go (initialization)\n- Documentation (CLI_REFERENCE.md, TROUBLESHOOTING.md, etc.)\n- MCP integration (integrations/beads-mcp/src/beads_mcp/config.py)\n\nTesting:\n- Ensure BEADS_DB still works (backward compatibility)\n- Test BEADS_DIR with both db and --no-db modes\n- Test priority order when both are set\n- Update integration tests\n\nRelated to GitHub issue #179","status":"closed","priority":2,"issue_type":"feature","created_at":"2025-11-02T18:19:26.131948-08:00","updated_at":"2025-11-02T18:27:14.545162-08:00","closed_at":"2025-11-02T18:27:14.545162-08:00"}
-{"id":"bd-e1bp5","title":"Review \u0026 merge PR #1013: Hyphenated prefix support","description":"dispatched_by: beads/crew/emma\n\n## PR Review Task\n\n**PR:** https://github.com/steveyegge/beads/pull/1013\n**Author:** sukhodolin\n\n## Summary\nFix ValidateIDFormat to support hyphenated prefixes (e.g., 'bead-me-up-3e9').\n\n## Changes\n- internal/validation/bead.go: Use utils.ExtractIssuePrefix instead of naive first-hyphen split\n- internal/validation/bead_test.go: Add comprehensive test cases\n\n## The Bug\nBefore: 'bead-me-up-3e9' → prefix 'bead' (wrong)\nAfter: 'bead-me-up-3e9' → prefix 'bead-me-up' (correct)\n\nThis fixes `bd create --parent` failing for projects with hyphenated prefixes.\n\n## Review Checklist\n1. Pull branch locally: `gh pr checkout 1013 --repo steveyegge/beads`\n2. Run tests: `go test ./internal/validation/...`\n3. Verify all new test cases pass\n4. If all good, merge: `gh pr merge 1013 --repo steveyegge/beads --squash`\n\n## Classification\nEasy-win: Bug fix using existing utility, excellent test coverage.","status":"closed","priority":2,"issue_type":"task","assignee":"beads/crew/giles","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:17:33.24321-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-11T18:18:30.184491-08:00","closed_at":"2026-01-11T18:18:30.184491-08:00","close_reason":"PR #1013 was already merged (approved by steveyegge). All CI checks passed. Fix correctly handles hyphenated prefixes in ValidateIDFormat."}
+{"id":"bd-e1bp5","title":"Review \u0026 merge PR #1013: Hyphenated prefix support","description":"dispatched_by: beads/crew/emma\n\n## PR Review Task\n\n**PR:** https://github.com/steveyegge/beads/pull/1013\n**Author:** sukhodolin\n\n## Summary\nFix ValidateIDFormat to support hyphenated prefixes (e.g., 'bead-me-up-3e9').\n\n## Changes\n- internal/validation/bead.go: Use utils.ExtractIssuePrefix instead of naive first-hyphen split\n- internal/validation/bead_test.go: Add comprehensive test cases\n\n## The Bug\nBefore: 'bead-me-up-3e9' → prefix 'bead' (wrong)\nAfter: 'bead-me-up-3e9' → prefix 'bead-me-up' (correct)\n\nThis fixes `bd create --parent` failing for projects with hyphenated prefixes.\n\n## Review Checklist\n1. Pull branch locally: `gh pr checkout 1013 --repo steveyegge/beads`\n2. Run tests: `go test ./internal/validation/...`\n3. Verify all new test cases pass\n4. If all good, merge: `gh pr merge 1013 --repo steveyegge/beads --squash`\n\n## Classification\nEasy-win: Bug fix using existing utility, excellent test coverage.","status":"closed","priority":2,"issue_type":"task","assignee":"beads/crew/giles","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:17:33.24321-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-11T18:46:13.779933-08:00","closed_at":"2026-01-11T18:46:13.779933-08:00","close_reason":"PR #1013 merged to main"}
 {"id":"bd-e1d645e8","title":"Rapid 4","status":"closed","priority":3,"issue_type":"task","created_at":"2025-10-29T19:11:57.484329-07:00","updated_at":"2025-12-14T12:12:46.554853-08:00","closed_at":"2025-11-07T23:18:52.316948-08:00"}
 {"id":"bd-e2e6","title":"Implement postinstall script for binary download","description":"Create npm/scripts/postinstall.js that downloads platform-specific binaries:\n\n## Platform detection\n- Detect os.platform() and os.arch()\n- Map to GitHub release asset names:\n  - linux-amd64 → bd-linux-amd64\n  - linux-arm64 → bd-linux-arm64\n  - darwin-amd64 → bd-darwin-amd64\n  - darwin-arm64 → bd-darwin-arm64\n  - win32-x64 → bd-windows-amd64.exe\n\n## Download logic\n- Fetch from GitHub releases: https://github.com/steveyegge/beads/releases/latest/download/${asset}\n- Save to npm/bin/bd (or bd.exe on Windows)\n- Set executable permissions (chmod +x)\n- Handle errors gracefully with helpful messages\n\n## Error handling\n- Check for unsupported platforms\n- Retry on network failures\n- Provide manual download instructions if automated fails\n- Skip download if binary already exists (for local development)","status":"closed","priority":1,"issue_type":"task","created_at":"2025-11-02T23:39:56.652829-08:00","updated_at":"2025-11-03T10:31:45.382215-08:00","closed_at":"2025-11-03T10:31:45.382215-08:00","dependencies":[{"issue_id":"bd-e2e6","depends_on_id":"bd-febc","type":"parent-child","created_at":"2025-11-02T23:40:32.94671-08:00","created_by":"daemon"}]}
 {"id":"bd-e2q9","title":"bd sync fails when run from directory with beads redirect","description":"\n## Bug\n\n`bd sync` fails with 'git status failed in worktree: exit status 128' when run from a directory that uses a beads redirect (e.g., crew/gus/.beads/redirect pointing to mayor/rig/.beads).\n\n## Reproduction\n\n1. Be in gastown/crew/gus (has .beads/redirect → ../../mayor/rig/.beads)\n2. Run `bd sync`\n3. Error: 'git status failed in worktree: exit status 128'\n\n## Workaround\n\nRun `bd sync` from the actual beads location:\n```bash\ncd /Users/stevey/gt/gastown/mayor/rig \u0026\u0026 bd sync\n```\n\n## Root Cause\n\nThe worktree path resolution in `getBeadsWorktreePath()` likely uses the crew/gus repo root instead of following the redirect to mayor/rig. The git worktree for beads-sync is in mayor/rig/.git/beads-worktrees/, not crew/gus/.git/beads-worktrees/.\n\n## Impact\n\nCrew workers with redirected beads cannot sync directly from their workspace.\n","status":"closed","priority":1,"issue_type":"bug","created_at":"2025-12-31T11:58:39.875764-08:00","created_by":"gastown/crew/gus","updated_at":"2025-12-31T13:31:39.510735-08:00","closed_at":"2025-12-31T13:31:39.510735-08:00","close_reason":"Fixed: use getRepoRootFromPath(ctx, beadsDir) instead of syncbranch.GetRepoRoot(ctx) to resolve repo root from redirect target"}
@@ -1037,6 +1048,7 @@
 {"id":"bd-e6d71828","title":"Add transaction + retry logic for N-way collision resolution","description":"## Problem\nCurrent N-way collision resolution fails on UNIQUE constraint violations during convergence rounds when 5+ clones sync. The RemapCollisions function is non-atomic and performs operations sequentially:\n1. Delete old issues (CASCADE deletes dependencies)\n2. Create remapped issues (can fail with UNIQUE constraint)\n3. Recreate dependencies\n4. Update text references\n\nFailure at step 2 leaves database in inconsistent state.\n\n## Solution\nWrap collision resolution in database transaction with retry logic:\n- Make entire RemapCollisions operation atomic\n- Retry up to 3 times on UNIQUE constraint failures\n- Re-sync counters between retries\n- Add better error messages for debugging\n\n## Implementation\nLocation: internal/storage/sqlite/collision.go:342 (RemapCollisions function)\n\n```go\n// Retry up to 3 times on UNIQUE constraint failures\nfor attempt := 0; attempt \u003c 3; attempt++ {\n    err := s.db.ExecInTransaction(func(tx *sql.Tx) error {\n        // All collision resolution operations\n    })\n    if !isUniqueConstraintError(err) {\n        return err\n    }\n    s.SyncAllCounters(ctx)\n}\n```\n\n## Success Criteria\n- 5-clone collision test passes reliably\n- No partial state on UNIQUE constraint errors\n- Automatic recovery from transient ID conflicts\n\n## References\n- See beads_nway_test.go:124 for the KNOWN LIMITATION comment\n- Related to-7c5915ae (transaction support)","notes":"## Progress Made\n\n1. Added `ExecInTransaction` helper to SQLiteStorage for atomic database operations\n2. Added `IsUniqueConstraintError` function to detect UNIQUE constraint violations\n3. Wrapped `RemapCollisions` with retry logic (up to 3 attempts) with counter sync between retries\n4. Enhanced `handleRename` to detect and handle race conditions where target ID already exists\n5. Added defensive checks for when old ID has been deleted by another clone\n\n## Test Results\n\nThe changes improve N-way collision handling but don't fully solve the problem:\n- Original error: `UNIQUE constraint failed: issues.id` during first convergence round\n- With changes: Test proceeds further but encounters different collision scenarios\n- New error: `target ID already exists with different content` in later convergence rounds\n\n## Root Cause Analysis\n\nThe issue is more complex than initially thought. In N-way scenarios:\n1. Clone A remaps bd-1c63eb84 → test-2 → test-4\n2. Clone B remaps bd-1c63eb84 → test-3 → test-4  \n3. Both try to create test-4, but with different intermediate states\n4. This creates legitimate content collisions that require additional resolution\n\n## Next Steps  \n\nThe full solution requires:\n1. Making remapping fully deterministic across clones (same input → same remapped ID)\n2. OR making `handleRename` more tolerant of mid-flight collisions\n3. OR implementing full transaction support for multi-step collision resolution -7c5915ae)\n\nThe retry logic added here provides a foundation but isn't sufficient for complex N-way scenarios.","status":"closed","priority":1,"issue_type":"task","created_at":"2025-10-29T10:22:32.716678-07:00","updated_at":"2025-11-02T17:08:52.043475-08:00","closed_at":"2025-11-02T17:08:52.043477-08:00"}
 {"id":"bd-e6llb","title":"BG's issue to reopen","status":"open","priority":1,"issue_type":"bug","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:16:00.121151-08:00","created_by":"beads/crew/wolf","updated_at":"2026-01-11T18:16:00.261062-08:00"}
 {"id":"bd-e6x","title":"bd sync --squash: batch multiple syncs into single commit","description":"For solo developers who don't need real-time multi-agent coordination, add a --squash option to bd sync that accumulates changes and commits them in a single commit rather than one commit per sync.\n\nThis addresses the git history pollution concern (many 'bd sync: timestamp' commits) while preserving the default behavior needed for orchestration.\n\n**Proposed behavior:**\n- `bd sync --squash` accumulates pending exports without committing\n- Commits accumulated changes on session end or explicit `bd sync` (without --squash)\n- Default behavior unchanged (immediate commits for orchestration)\n\n**Use case:** Solo developers who want cleaner git history but don't need real-time coordination between agents.\n\n**Related:** PR #411 (docs: reduce bd sync commit pollution)\n**See also:** Multi-repo support as alternative solution (docs/MULTI_REPO_AGENTS.md)","status":"closed","priority":3,"issue_type":"feature","created_at":"2025-11-28T18:21:47.789887-08:00","updated_at":"2025-12-02T17:11:19.738252987-05:00","closed_at":"2025-11-28T21:56:57.608777-08:00"}
+{"id":"bd-e73xs","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:51:42.378344-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T18:51:42.446452-08:00","closed_at":"2026-01-11T18:51:42.446452-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-e7ou","title":"Fix --as flag: uses title instead of ID in mol bond","description":"In bondProtoProto, the --as flag is documented as 'Custom ID for compound proto' but the implementation uses it as the title, not the issue ID.\n\n**Current behavior (mol.go:637-638):**\n```go\nif customID != '' {\n    compoundTitle = customID  // Used as title, not ID\n}\n```\n\n**Options:**\n1. Change flag description to say 'Custom title' (documentation fix)\n2. Actually use it as a custom ID prefix or full ID (feature change)\n3. Add separate --title flag and make --as actually set ID\n\nRecommend option 1 for simplest fix - change 'Custom ID' to 'Custom title' in the flag description.","status":"closed","priority":3,"issue_type":"bug","created_at":"2025-12-21T10:22:59.069368-08:00","updated_at":"2025-12-21T21:18:48.514513-08:00","closed_at":"2025-12-21T21:18:48.514513-08:00"}
 {"id":"bd-e7v0c","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","created_at":"2026-01-10T15:08:38.465263-08:00","created_by":"beads/refinery","updated_at":"2026-01-10T15:08:38.498968-08:00","closed_at":"2026-01-10T15:08:38.498968-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-e8be4224","title":"Batch test 3","status":"closed","priority":2,"issue_type":"task","created_at":"2025-10-29T15:29:01.964091-07:00","updated_at":"2025-10-31T12:00:43.183212-07:00","closed_at":"2025-10-31T12:00:43.183212-07:00"}
@@ -1140,6 +1152,7 @@
 {"id":"bd-ffr9","title":"deletions.jsonl recreated locally after tombstone migration","description":"After running bd migrate-tombstones and removing deletions.jsonl from git, the file gets recreated locally on subsequent bd commands.\n\n**Steps to reproduce:**\n1. Run bd migrate-tombstones (converts to inline tombstones)\n2. Remove deletions.jsonl from git and filesystem\n3. Run bd sync or bd stats\n4. deletions.jsonl reappears\n\n**Expected behavior:**\nAfter migration, deletions.jsonl should not be recreated. All tombstone data should come from inline tombstones in issues.jsonl.\n\n**Workaround:** Add deletions.jsonl to .gitignore to prevent re-tracking. File still gets created but won't pollute the repo.","status":"closed","priority":2,"issue_type":"bug","created_at":"2025-12-15T17:28:50.949625-08:00","updated_at":"2025-12-16T00:54:56.459227-08:00","closed_at":"2025-12-16T00:54:56.459227-08:00"}
 {"id":"bd-fgqpg","title":"bd mol ready --gated: hardcoded query limits","description":"Hardcoded Limit:100 for closed gates and Limit:500 for ready work (mol_ready_gated.go:122,134). Could miss molecules in large deployments. Consider making configurable or at least documenting the limitation.","status":"open","priority":3,"issue_type":"task","created_at":"2026-01-08T21:32:18.566735-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-08T21:32:18.566735-08:00","dependencies":[{"issue_id":"bd-fgqpg","depends_on_id":"bd-ka761","type":"discovered-from","created_at":"2026-01-08T21:32:27.973688-08:00","created_by":"beads/crew/emma"}]}
 {"id":"bd-fgw3","title":"Update local installation","description":"Run install script or brew upgrade to get new version locally: curl -fsSL .../install.sh | bash","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-19T22:56:05.052016-08:00","updated_at":"2025-12-20T00:49:51.928221-08:00","closed_at":"2025-12-20T00:25:52.805029-08:00","dependencies":[{"issue_id":"bd-fgw3","depends_on_id":"bd-6s61","type":"parent-child","created_at":"2025-12-19T22:56:15.248427-08:00","created_by":"daemon"},{"issue_id":"bd-fgw3","depends_on_id":"bd-si4g","type":"blocks","created_at":"2025-12-19T22:56:23.497325-08:00","created_by":"daemon"}]}
+{"id":"bd-fh5gq","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:01:14.863446-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:01:14.926676-08:00","closed_at":"2026-01-11T19:01:14.926676-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-fherg","title":"Session ended: gt-beads-crew-emma","status":"closed","priority":2,"issue_type":"event","created_at":"2026-01-09T00:29:38.494746-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-09T00:29:38.531019-08:00","closed_at":"2026-01-09T00:29:38.531019-08:00","close_reason":"auto-closed session event"}
 {"id":"bd-fi05","title":"bd sync fails with orphaned issues and duplicate ID conflict","description":"After fixing the deleted_at TEXT column scanning bug (commit 18b1eb2), bd sync still fails with two issues:\n\n1. Orphan Detection Warning: 12 orphaned child issues whose parents no longer exist (bd-cb64c226.* and bd-cbed9619.*)\n\n2. Import Failure: UNIQUE constraint failed for bd-360 - this tombstone exists in both DB and JSONL\n\nError: \"Import failed: error creating depth-0 issues: bulk insert issues: failed to insert issue bd-360: sqlite3: constraint failed: UNIQUE constraint failed: issues.id\"\n\nFix options:\n- Delete orphaned child issues with bd delete\n- Resolve bd-360 duplicate (in deletions.jsonl vs tombstone in DB)\n- Reset sync branch: git branch -f beads-sync main \u0026\u0026 git push --force-with-lease origin beads-sync","notes":"Fixed tombstone constraint violation bug. When deleting closed issues, the CHECK constraint (status = 'closed') = (closed_at IS NOT NULL) was violated because CreateTombstone didn't clear closed_at. Fix: set closed_at = NULL in tombstone creation SQL.\n\nThe sync data corruption (orphaned issues in beads-sync branch) requires manual cleanup: reset sync branch with 'git branch -f beads-sync main \u0026\u0026 git push --force-with-lease origin beads-sync'","status":"tombstone","priority":2,"issue_type":"bug","created_at":"2025-12-13T07:14:33.831346-08:00","updated_at":"2025-12-25T01:21:01.952723-08:00","deleted_at":"2025-12-25T01:21:01.952723-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"bug"}
 {"id":"bd-firao","title":"BG's issue to reopen","status":"open","priority":1,"issue_type":"bug","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:16:11.502623-08:00","created_by":"beads/crew/wolf","updated_at":"2026-01-11T18:16:11.641379-08:00"}
@@ -1245,6 +1258,7 @@
 {"id":"bd-hnkg","title":"GH#540: Add silent quick-capture mode (bd q)","description":"Add bd q alias for quick capture that outputs only issue ID. Useful for piping/scripting. See GitHub issue #540.","status":"tombstone","priority":2,"issue_type":"feature","created_at":"2025-12-16T01:03:38.260135-08:00","updated_at":"2025-12-17T16:11:17.070763-08:00","deleted_at":"2025-12-17T16:11:17.070763-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"feature"}
 {"id":"bd-hnnig","title":"Session ended: gt-beads-crew-wolf","status":"closed","priority":2,"issue_type":"event","created_at":"2026-01-09T13:53:21.121124-08:00","created_by":"beads/crew/wolf","updated_at":"2026-01-09T13:53:21.169378-08:00","closed_at":"2026-01-09T13:53:21.169378-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-hnw8j","title":"gt prime: add tests for --dry-run, --state, --explain flags","description":"The new observability flags have no test coverage:\n\n1. --dry-run: Test that side effects are skipped (marker not removed, bd prime not called)\n2. --state: Test state detection for each state (normal, post-handoff, crash-recovery, autonomous)\n3. --explain: Test that [EXPLAIN] tags are added when flag is set\n\nKey functions to test:\n- detectSessionState()\n- outputState()\n- checkHandoffMarkerDryRun()\n- explain()\n\nLocation: gastown/mayor/rig/internal/cmd/prime.go, needs prime_test.go additions","status":"open","priority":2,"issue_type":"task","created_at":"2026-01-10T00:46:27.973422-08:00","created_by":"mayor","updated_at":"2026-01-10T17:19:11.081255-08:00"}
+{"id":"bd-hnwxp","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:40:41.166373-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:40:41.23064-08:00","closed_at":"2026-01-11T19:40:41.23064-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-ho5","title":"Add 'town report' command for aggregated swarm status","description":"## Problem\nGetting a full swarm status requires running 6+ commands:\n- `town list \u003crig\u003e` for each rig\n- `town mail inbox` as Boss\n- `bd list --status=open/in_progress` per rig\n\nThis is slow and error-prone for both humans and agents.\n\n## Proposed Solution\nAdd `town report [RIG]` command that aggregates:\n- All rigs with polecat states (running/stopped, awake/asleep)\n- Boss inbox summary (unread count, recent senders)\n- Aggregate issue counts per rig (open/in_progress/blocked)\n\nExample output:\n```\n=== beads ===\nPolecats: 5 (5 running, 0 stopped)\nIssues: 20 open, 0 in_progress, 0 blocked\n\n=== gastown ===\nPolecats: 6 (4 running, 2 stopped)\nIssues: 0 open, 0 in_progress, 0 blocked\n\n=== Boss Mail ===\nUnread: 10 | Total: 22\nRecent: rictus (21:19), scrotus (21:14), immortanjoe (21:14)\n```\n\n## Acceptance Criteria\n- [ ] `town report` shows all rigs\n- [ ] `town report \u003crig\u003e` shows single rig detail\n- [ ] Output is concise and scannable\n- [ ] Completes in \u003c2 seconds","status":"closed","priority":2,"issue_type":"feature","created_at":"2025-11-27T22:55:36.8919-08:00","updated_at":"2025-11-27T22:56:08.071838-08:00","closed_at":"2025-11-27T22:56:08.071838-08:00"}
 {"id":"bd-hobo","title":"Distinct prefixes for protos, molecules, wisps","description":"Template/workflow entities should have visually distinct prefixes from regular issues.\n\n**Problem:**\n- Protos (bd-7bs4) look like regular issues - invites squashing\n- Molecules (poured instances) also use bd- prefix\n- Wisps are in separate DB but still use bd- when referenced\n\n**Proposed Prefixes:**\n- `proto-` for templates (e.g., proto-release, proto-review)\n- `mol-` for active molecules (poured from protos)\n- `wisp-` for ephemeral wisps (vapor phase)\n\n**Benefits:**\n- Instant visual recognition of entity type\n- Prevents accidental modification of templates\n- Clear lifecycle: proto → mol → wisp → digest\n\n**Implementation options:**\n1. Separate databases with different prefixes\n2. Issue type determines prefix generation\n3. Naming convention enforced by bd pour/wisp commands","status":"closed","priority":2,"issue_type":"feature","created_at":"2025-12-24T16:45:24.940809-08:00","updated_at":"2025-12-25T02:04:52.459233-08:00","closed_at":"2025-12-25T02:04:52.459233-08:00","labels":["workflow"]}
 {"id":"bd-hp2gf","title":"Session ended: gt-beads-crew-emma","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:22:50.612675-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-11T18:22:50.678625-08:00","closed_at":"2026-01-11T18:22:50.678625-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
@@ -1363,11 +1377,13 @@
 {"id":"bd-k4ww","title":"Merge: pearl-mjtmd27a","description":"branch: polecat/pearl-mjtmd27a\ntarget: main\nsource_issue: pearl-mjtmd27a\nrig: beads","status":"closed","priority":2,"issue_type":"merge-request","created_at":"2025-12-30T22:16:38.232474-08:00","created_by":"beads/polecats/pearl","updated_at":"2026-01-01T10:43:18.623861-08:00","closed_at":"2026-01-01T10:43:18.623861-08:00","close_reason":"Stale MR - branch no longer exists on remote"}
 {"id":"bd-k58","title":"Proposal workflow (propose/withdraw/accept)","description":"Implement commands and state machine for moving issues between personal planning repos and canonical upstream repos, enabling contributors to propose work without polluting PRs.","status":"closed","priority":1,"issue_type":"epic","created_at":"2025-11-04T11:21:41.113647-08:00","updated_at":"2025-11-05T00:08:42.814698-08:00","closed_at":"2025-11-05T00:08:42.814699-08:00","dependencies":[{"issue_id":"bd-k58","depends_on_id":"bd-4ms","type":"parent-child","created_at":"2025-11-04T11:22:21.811261-08:00","created_by":"daemon"}]}
 {"id":"bd-k6by7","title":"Session ended: gt-beads-crew-fang","status":"closed","priority":2,"issue_type":"event","created_at":"2026-01-09T13:52:51.593185-08:00","created_by":"beads/crew/fang","updated_at":"2026-01-09T13:52:51.631065-08:00","closed_at":"2026-01-09T13:52:51.631065-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
+{"id":"bd-k82j1","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:44:22.376665-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:44:22.442307-08:00","closed_at":"2026-01-11T19:44:22.442307-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-k92d","title":"Critical: Beads deletes issues during sync (GH#464)","description":"# Findings\n\n## Root Cause 1: git-history-backfill deletes issues during repo ID mismatch\n\n**Location:** internal/importer/importer.go, purgeDeletedIssues()\n\nThe git-history-backfill mechanism checks git history to find deleted issues. When there's a repo ID mismatch (e.g., database from a different clone or after remote URL change), this can incorrectly treat local issues as deleted because they don't exist in the remote's git history.\n\n**Fix Applied:** Added safety guard at lines 971-987 in importer.go that:\n- Checks issue status before deletion via git-history-backfill\n- Prevents deletion of open/in_progress issues\n- Provides clear warning with actionable steps\n- Suggests using --no-git-history flag or bd delete for explicit deletion\n\n## Root Cause 2: Daemon sync race condition overwrites local unpushed changes\n\n**Location:** cmd/bd/daemon_sync.go, performAutoImport()\n\nThe daemon sync's auto-import function pulls from remote without checking for uncommitted local changes. This can overwrite local work that hasn't been pushed yet.\n\n**Fix Applied:** Added warning at lines 565-575 in daemon_sync.go that:\n- Checks for uncommitted changes before pulling\n- Warns user about potential overwrite\n- Suggests running 'bd sync' to commit/push first\n- Continues with pull but user is informed\n\n## Additional Safety Improvements\n\n1. Enhanced repo ID mismatch error message (daemon_sync.go:362-371)\n   - Added warning about deletion risk\n   - Clarified that mismatch can cause incorrect deletions\n\n2. Safety guard in deletions manifest processing (importer.go:886-902)\n   - Prevents deletion of open/in_progress issues in deletions.jsonl\n   - Provides diagnostic information\n   - Suggests recovery options\n\n3. Updated tests (purge_test.go)\n   - Changed test to use closed issue (safe to delete)\n   - Verifies safety guard works correctly\n\n## Testing\n\nAll tests pass:\n- go test ./internal/importer/... ✓\n- go build ./cmd/bd/ ✓\n\nThe safety guards now prevent both root causes from deleting active work.","status":"closed","priority":0,"issue_type":"bug","created_at":"2025-12-14T23:00:19.36203-08:00","updated_at":"2025-12-14T23:07:43.311616-08:00","closed_at":"2025-12-14T23:07:43.311616-08:00"}
 {"id":"bd-k9f1t","title":"Session ended: gt-beads-crew-emma","status":"closed","priority":2,"issue_type":"event","created_at":"2026-01-09T14:27:04.672799-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-09T14:27:04.71014-08:00","closed_at":"2026-01-09T14:27:04.71014-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-ka761","title":"Gate-based async molecule resume","description":"## Summary\n\nRefactor molecule execution to use gates for async coordination, eliminating spin-wait\nanti-patterns. When a polecat hits a gate step, it exits cleanly. The Deacon patrol\ndiscovers molecules with resolved gates and dispatches new polecats to continue.\n\n## Motivation\n\nThe beads-release formula has a `wait-ci` step that tells agents to poll GitHub Actions\nfor 5-10 minutes. This is wasteful and unreliable. We have gate infrastructure in beads\nbut no integration with molecule execution flow.\n\nDave ran a version bump to 0.46.0 without the release molecule - exactly because agents\ndon't know all the steps when there's no enforced workflow with proper async handling.\n\n## Design\n\n### Gate Steps in Formula Schema\n\n```toml\n[[steps]]\nid = \"wait-ci\"\ngate = \"gh:run\"\ngate_hint = \"release.yml\"\ntimeout = \"30m\"\n```\n\n### Flow\n\n1. `bd mol cook` creates gate beads for gate steps\n2. Polecat reaches gate step → checks if gate closed\n3. If open → `gt done --phase-complete --gate \u003cid\u003e` and exit\n4. Deacon patrol runs `bd gate check` → closes resolved gates\n5. Deacon discovers molecules with closed gates → slings to polecats\n6. New polecat continues from gate step\n\n### Key Principle\n\nDiscovery-based resume, not waiter-based. The molecule state IS the waiter.\nPatrol discovers reality each cycle. Nondeterministic idempotence.\n\n## Components\n\n- **Beads**: Formula parser, mol cook, mol ready --gated\n- **Gas Town**: Deacon patrol step for molecule dispatch\n- **Release formula**: Refactor to use gate step\n\n## References\n\n- Gate infrastructure: cmd/bd/gate.go\n- Current release formula: formulas/beads-release.formula.toml\n- Deacon patrol: mol-deacon-patrol.formula.toml","status":"closed","priority":1,"issue_type":"epic","assignee":"beads/crew/dave","created_at":"2026-01-08T20:53:10.34329-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-08T23:04:08.671651-08:00","closed_at":"2026-01-08T23:04:08.671653-08:00","close_reason":"All 5 child tasks completed: formula parser recognizes gate fields, mol cook creates gate beads, mol ready --gated finds gate-ready molecules, Deacon patrol dispatches them, and beads-release formula refactored to use gate steps"}
 {"id":"bd-kazt","title":"Add tests for 3-way merge scenarios","description":"Comprehensive test coverage for merge logic.\n\n**Test cases**:\n- Simple field updates (left vs right)\n- Dependency merging (union + dedup)\n- Timestamp handling (max wins)\n- Deletion detection (deleted in one, modified in other)\n- Conflict generation (incompatible changes)\n- Issue resurrection prevention (bd-hv01 regression test)\n\n**Files**:\n- `internal/merge/merge_test.go`\n- `cmd/bd/merge_test.go`","status":"closed","priority":1,"issue_type":"task","created_at":"2025-11-05T18:42:20.472275-08:00","updated_at":"2025-11-06T15:52:41.863426-08:00","closed_at":"2025-11-06T15:52:41.863426-08:00","dependencies":[{"issue_id":"bd-kazt","depends_on_id":"bd-qqvw","type":"parent-child","created_at":"2025-11-05T18:42:28.740517-08:00","created_by":"daemon"},{"issue_id":"bd-kazt","depends_on_id":"bd-oif6","type":"blocks","created_at":"2025-11-05T18:42:35.469582-08:00","created_by":"daemon"}]}
 {"id":"bd-kb4g","title":"TestHooksCheckGitHooks failing - version mismatch (0.23.0 vs 0.23.1)","description":"The test is checking embedded hook versions and expecting 0.23.1, but got 0.23.0. This appears to be a version consistency issue that needs investigation.\n\nTest output:\n```\nHook pre-commit version mismatch: got 0.23.0, want 0.23.1\nHook post-merge version mismatch: got 0.23.0, want 0.23.1\nHook pre-push version mismatch: got 0.23.0, want 0.23.1\n```\n\nThis is blocking the landing of GH #274 fix.","status":"closed","priority":0,"issue_type":"bug","created_at":"2025-11-09T14:13:14.138537-08:00","updated_at":"2025-11-20T18:54:56.496852-05:00","closed_at":"2025-11-10T10:46:09.94181-08:00"}
+{"id":"bd-kb5yu","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:31:07.510822-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:31:07.579702-08:00","closed_at":"2026-01-11T19:31:07.579702-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-kbfn","title":"Phase 2: Timer Gates (Witness integration)","description":"Implement timer gate evaluation in Witness patrol.\n\n## Behavior\n- Witness patrol includes `bd gate check --type=timer`\n- Gate metadata: timeout, created_at stored on gate issue\n- Expired gates escalate to Deacon/Overseer (not auto-close)\n\n## Implementation\n1. Add timer gate check to mol-witness-patrol.formula.toml\n2. `bd gate check --type=timer` evaluates: now \u003e created_at + timeout\n3. Expired gates: escalate via `gt escalate --type gate_timeout`\n4. Non-expired gates: skip (will check next patrol)\n\n## Acceptance Criteria\n- [ ] `bd gate check --type=timer` works\n- [ ] Witness patrol runs timer check each cycle\n- [ ] Expired gates trigger escalation\n- [ ] Gate timeout configurable per-gate","status":"closed","priority":2,"issue_type":"task","assignee":"beads/polecats/quartz","created_at":"2026-01-02T01:55:40.113565-08:00","created_by":"mayor","updated_at":"2026-01-02T12:48:35.498928-08:00","closed_at":"2026-01-02T12:48:35.498928-08:00","close_reason":"Implemented bd gate check --type=timer with escalation support","dependencies":[{"issue_id":"bd-kbfn","depends_on_id":"bd-mcva","type":"parent-child","created_at":"2026-01-02T01:55:53.92126-08:00","created_by":"mayor"}]}
 {"id":"bd-kblo","title":"bd prime should mention when beads is redirected","description":"## Problem\n\nAgents running in a redirected clone don't know they're sharing beads with other clones. This can cause confusion when molecules or issues seem to 'appear' or 'disappear'.\n\n## Proposed Solution\n\nWhen `bd prime` runs and detects a redirect, include it in the output:\n\n```\nBeads: /Users/stevey/gt/beads/mayor/rig/.beads\n       (redirected from crew/dave - you share issues with other clones)\n```\n\n## Why\n\nVisibility over magic. If agents can see the redirect, they can reason about it.\n\n## Related\n\n- bd where command (shows this on demand)\n- gt redirect following (ensures gt matches bd behavior)","status":"closed","priority":3,"issue_type":"feature","created_at":"2025-12-27T21:15:55.026907-08:00","created_by":"beads/crew/dave","updated_at":"2025-12-27T21:33:33.765635-08:00","closed_at":"2025-12-27T21:33:33.765635-08:00"}
 {"id":"bd-kc6v","title":"Merge: quartz-mk04ckp1","description":"branch: polecat/quartz-mk04ckp1\ntarget: main\nsource_issue: quartz-mk04ckp1\nrig: beads\nagent_bead: bd-beads-polecat-quartz\nretry_count: 0\nlast_conflict_sha: null\nconflict_task_id: null","status":"closed","priority":2,"issue_type":"merge-request","created_at":"2026-01-04T11:29:18.690587-08:00","created_by":"beads/polecats/quartz","updated_at":"2026-01-05T19:45:43.98813-08:00","closed_at":"2026-01-05T19:45:43.98813-08:00","close_reason":"Branch deleted, already merged"}
@@ -1385,6 +1401,7 @@
 {"id":"bd-kkka","title":"Dead code: fetchAndRebaseInWorktree() marked DEPRECATED but still exists","description":"attached_args: Remove dead code fetchAndRebaseInWorktree\n\nThe function fetchAndRebaseInWorktree() in internal/syncbranch/worktree.go (lines 811-830) is marked as DEPRECATED with a comment:\n\n```go\n// fetchAndRebaseInWorktree is DEPRECATED - kept for reference only.\n// Use contentMergeRecovery instead to avoid tombstone resurrection.\n```\n\nSince contentMergeRecovery() is the replacement and is being used, this dead code should be removed to reduce maintenance burden.\n\nLocation: internal/syncbranch/worktree.go:811-830","status":"closed","priority":3,"issue_type":"chore","created_at":"2025-12-28T15:32:21.97865-08:00","created_by":"beads/crew/dave","updated_at":"2025-12-28T16:41:36.721496-08:00","closed_at":"2025-12-28T16:41:36.721496-08:00","dependencies":[{"issue_id":"bd-kkka","depends_on_id":"bd-784c","type":"parent-child","created_at":"2025-12-28T15:38:04.241483-08:00","created_by":"daemon"}]}
 {"id":"bd-kla1","title":"Add bd init --contributor wizard","description":"Interactive wizard for OSS contributor setup. Guides user through: fork workflow setup, separate planning repo configuration, auto-detection of fork relationships, examples of common OSS workflows.","status":"closed","priority":1,"issue_type":"task","created_at":"2025-11-05T18:04:29.958409-08:00","updated_at":"2025-11-05T19:27:33.07529-08:00","closed_at":"2025-11-05T18:53:51.267625-08:00","dependencies":[{"issue_id":"bd-kla1","depends_on_id":"bd-8rd","type":"parent-child","created_at":"2025-11-05T18:04:39.120064-08:00","created_by":"daemon"}]}
 {"id":"bd-km5jm","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T04:38:38.283934-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T04:38:38.346823-08:00","closed_at":"2026-01-11T04:38:38.346823-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
+{"id":"bd-kmamh","title":"Session ended: gt-beads-crew-emma","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:46:27.107428-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-11T18:46:27.17953-08:00","closed_at":"2026-01-11T18:46:27.17953-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-knta","title":"Deacon Patrol","description":"Mayor's daemon patrol loop for handling callbacks, health checks, and cleanup.","status":"tombstone","priority":2,"issue_type":"molecule","created_at":"2025-12-26T13:08:21.233771-08:00","updated_at":"2025-12-27T00:10:54.179341-08:00","deleted_at":"2025-12-27T00:10:54.179341-08:00","deleted_by":"daemon","delete_reason":"delete","original_type":"molecule"}
 {"id":"bd-kp9y","title":"gt swarm dispatch command not working","description":"The 'gt swarm dispatch' command shown in help doesn't appear to work as expected.\n\n**Observed:**\n```\n$ gt swarm dispatch bd-784c\n[prints help text instead of dispatching]\n```\n\n**Expected:**\nShould dispatch the next ready task from the epic to an available worker.\n\n**Workaround:**\nHad to manually use 'gt sling \u003cissue\u003e \u003cpolecat\u003e' for each task dispatch.\n\n**Impact:**\n- Manual task dispatch defeats swarm automation\n- Coordinator has to track which tasks are ready and which polecats are free\n\n**Suggestion:**\nImplement or fix 'gt swarm dispatch' to:\n1. Find next unassigned task in epic\n2. Find idle polecat in swarm\n3. Sling task to polecat automatically","status":"closed","priority":3,"issue_type":"bug","created_at":"2025-12-28T16:18:10.320094-08:00","created_by":"beads/crew/dave","updated_at":"2025-12-29T18:30:05.386394-08:00","closed_at":"2025-12-29T18:30:05.386394-08:00","close_reason":"Moved to gastown: gt-s94gq (this is a gt command, not beads)"}
 {"id":"bd-kpa7c","title":"Consolidate DaemonStatusReport with DaemonHealthReport types","description":"daemon_status.go defines DaemonStatusReport and DaemonStatusAllResponse which are very similar to DaemonHealthReport and DaemonHealthResponse in daemons.go.\n\nConsider:\n1. Merging these types into a single shared type\n2. Making daemon status --all and daemon health use the same type\n3. Deciding if 'bd daemon health' should be deprecated in favor of 'bd daemon status --all'\n\nBoth have: Workspace, PID, Version, Status, Issue, VersionMismatch fields.\nDaemonStatusReport adds: Started, UptimeSeconds, AutoCommit, AutoPush, AutoPull, LocalMode, SyncInterval, DaemonMode, LogPath, IsCurrent","status":"open","priority":3,"issue_type":"task","created_at":"2026-01-10T16:30:45.639544-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-10T16:30:45.639544-08:00"}
@@ -1467,6 +1484,7 @@
 {"id":"bd-ltv9","title":"Session ended: gt-beads-crew-emma","status":"closed","priority":2,"issue_type":"event","created_at":"2026-01-07T00:23:28.527561-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-07T00:23:28.679767-08:00","closed_at":"2026-01-07T00:23:28.679767-08:00","close_reason":"auto-closed session event"}
 {"id":"bd-luso","title":"Add agent identity to commit metadata for forensics","description":"## Problem\n\nWhen agents (polecats, crew workers) make commits on behalf of a human, the commit only shows:\n- **Author**: Human (e.g., Steve Yegge)\n- **Co-Authored-By**: Claude Opus 4.5 (generic)\n\nMissing from the audit trail:\n- Which agent instance performed the work\n- Whether it was a polecat (transient) or crew (persistent)\n- What rig/workspace it ran in\n\nExample from a recent release commit:\n```\nAuthor: Steve Yegge \u003csteve.yegge@gmail.com\u003e\nCo-Authored-By: Claude Opus 4.5 \u003cnoreply@anthropic.com\u003e\n```\n\nNo way to trace this back to the specific agent session that executed the release molecule.\n\n## Proposal\n\nAdd git trailers to commits made by Gas Town agents:\n\n```\nExecuted-By: beads/polecat/Nux-1766978911613\nRig: beads\nRole: polecat\n```\n\nOr for crew workers:\n```\nExecuted-By: beads/crew/emma\nRig: beads\nRole: crew\n```\n\n## Benefits\n\n1. **Forensics**: If a release goes wrong, trace back to the exact agent session\n2. **Audit**: Query commits by agent type (`git log --grep=\"Role: polecat\"`)\n3. **Debugging**: Correlate commits with handoff mail and session logs\n4. **Accountability**: Distinguish human-direct vs agent-mediated commits\n\n## Implementation\n\nCould be implemented via:\n- Claude Code hooks (UserPromptSubmit or pre-commit)\n- `gt` commit helper that injects trailers\n- CLAUDE.md instructions for agents to include trailers\n\n## Open Questions\n\n- Should molecule ID be included if work was part of a molecule?\n- Should session ID or other correlation data be included?\n- Privacy considerations for commit metadata?","status":"closed","priority":2,"issue_type":"feature","created_at":"2025-12-29T13:33:53.591916-08:00","created_by":"beads/crew/emma","updated_at":"2025-12-29T21:26:41.103041-08:00","closed_at":"2025-12-29T21:26:41.103041-08:00","close_reason":"Implemented via prepare-commit-msg git hook that auto-injects agent identity trailers"}
 {"id":"bd-lv2i0","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T00:59:47.297999-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T00:59:47.350861-08:00","closed_at":"2026-01-11T00:59:47.350861-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
+{"id":"bd-lvgyp","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:05:01.095846-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:05:01.154809-08:00","closed_at":"2026-01-11T19:05:01.154809-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-lw0x","title":"Fix bd sync race condition with daemon causing dirty working directory","description":"After bd sync completes with sync.branch mode, subsequent bd commands or daemon file watcher would see a hash mismatch and trigger auto-import, which then schedules re-export, dirtying the working directory.\n\n**Root cause:**\n1. bd sync exports JSONL with NEW content (hash H1)\n2. bd sync updates jsonl_content_hash = H1 in DB\n3. bd sync restores JSONL from HEAD (OLD content, hash H0)\n4. Now: file hash = H0, DB hash = H1 (MISMATCH)\n5. Daemon or next CLI command sees mismatch, imports from OLD JSONL\n6. Import triggers re-export → file is dirty\n\n**Fix:**\nAfter restoreBeadsDirFromBranch(), update jsonl_content_hash to match the restored file's hash. This ensures daemon and CLI see file hash = DB hash → no spurious import/export cycle.\n\nRelated: bd-c83r (multiple daemon prevention)","status":"tombstone","priority":2,"issue_type":"bug","created_at":"2025-12-13T06:42:17.130839-08:00","updated_at":"2025-12-25T01:21:01.952723-08:00","deleted_at":"2025-12-25T01:21:01.952723-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"bug"}
 {"id":"bd-lwnt","title":"Test P1 priority","status":"closed","priority":1,"issue_type":"task","created_at":"2025-11-05T12:58:38.074112-08:00","updated_at":"2025-11-05T12:58:44.711763-08:00","closed_at":"2025-11-05T12:58:44.711763-08:00"}
 {"id":"bd-lxzx","title":"Add close_reason to JSONL export format documentation","description":"PR #551 now persists close_reason to the database, but there's a question about whether this field should be exported to JSONL format.\n\n## Current State\n- close_reason is stored in issues.close_reason column\n- close_reason is also stored in events table (audit trail)\n- The JSONL export format may or may not include close_reason\n\n## Questions\n1. Should close_reason be exported to JSONL format?\n2. If yes, where should it go (root level or nested in events)?\n3. Should there be any special handling to avoid duplication?\n4. How should close_reason be handled during JSONL import?\n\n## Why This Matters\n- JSONL is the git-friendly sync format\n- Other beads instances import from JSONL\n- close_reason is meaningful data that should be preserved across clones\n\n## Suggested Action\n- Check if close_reason is currently exported in JSONL\n- If not, add it to the export schema\n- Document the field in JSONL format spec\n- Add tests for round-trip (export -\u003e import -\u003e verify close_reason)","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-14T14:25:17.414916-08:00","updated_at":"2025-12-30T18:12:30.972954-08:00","closed_at":"2025-12-30T17:03:27.56903-08:00","close_reason":"Documented close_reason in JSONL schema and added round-trip test","dependencies":[{"issue_id":"bd-lxzx","depends_on_id":"bd-z86n","type":"discovered-from","created_at":"2025-12-14T14:25:17.416131-08:00","created_by":"stevey"}]}
@@ -1698,7 +1716,7 @@
 {"id":"bd-ov1","title":"Doctor: exclude merge artifacts from 'multiple JSONL' warning","description":"## Problem\n`bd doctor` warns about 'Multiple JSONL files found' when merge artifact files exist:\n```\nJSONL Files: Multiple JSONL files found: beads.base.jsonl, beads.left.jsonl, issues.jsonl ⚠\n```\n\nThis is confusing because these aren't real issue JSONL files - they're temporary snapshots for deletion tracking.\n\n## Fix\nExclude known merge artifact patterns from the multiple-JSONL warning:\n\n```go\n// In doctor JSONL check\nskipPatterns := map[string]bool{\n    \"beads.base.jsonl\": true,\n    \"beads.left.jsonl\": true, \n    \"beads.right.jsonl\": true,\n}\n```\n\n## Files\n- cmd/bd/doctor/ (JSONL check logic)","status":"closed","priority":1,"issue_type":"bug","created_at":"2025-11-28T17:06:26.266097-08:00","updated_at":"2025-12-02T17:11:19.747094858-05:00","closed_at":"2025-11-28T21:52:13.632029-08:00"}
 {"id":"bd-ov1u","title":"Clean repo cruft: bd_new, @AGENTS.md, state.json","description":"Remove tracked cruft:\n- git rm bd_new (31MB old binary)\n- git rm @AGENTS.md (duplicate, was 'removed' but still tracked)\n- Add state.json to .gitignore, git rm --cached state.json\n- Consider moving history/EPHEMERAL_MOLECULES_DESIGN.md to docs/ or removing","status":"closed","priority":2,"issue_type":"chore","assignee":"beads/polecats/obsidian","created_at":"2026-01-01T11:09:49.833027-08:00","created_by":"mayor","updated_at":"2026-01-01T11:12:22.320022-08:00","closed_at":"2026-01-01T11:12:22.320022-08:00","close_reason":"Removed bd_new (31MB) and @AGENTS.md. state.json already gitignored, history/EPHEMERAL_MOLECULES_DESIGN.md did not exist."}
 {"id":"bd-ovfoz","title":"Session ended: gt-beads-crew-emma","status":"closed","priority":2,"issue_type":"event","created_at":"2026-01-08T20:12:32.02034-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-08T20:12:32.055007-08:00","closed_at":"2026-01-08T20:12:32.055007-08:00","close_reason":"auto-closed session event"}
-{"id":"bd-ovypp","title":"Review \u0026 merge PR #1023: MCP custom issue types fix","description":"dispatched_by: beads/crew/emma\n\n## PR Review Task\n\n**PR:** https://github.com/steveyegge/beads/pull/1023\n**Author:** marvin-bitterlich\n\n## Summary\nFix Pydantic validation errors when MCP lists issues with custom types (agent, molecule, event, convoy).\n\n## Changes\n- Change IssueType and IssueStatus from Literal to str in models.py\n- Update parameter descriptions in server.py and tools.py\n- Bump version in uv.lock from 0.34.0 to 0.47.0\n\n## Review Checklist\n1. Pull branch locally: `gh pr checkout 1023 --repo steveyegge/beads`\n2. Run tests: `go test ./... \u0026\u0026 cd integrations/beads-mcp \u0026\u0026 uv run pytest`\n3. Verify MCP works with custom types\n4. If all good, merge: `gh pr merge 1023 --repo steveyegge/beads --squash`\n\n## Classification\nEasy-win: Clear bug fix, minimal changes, well-documented reasoning.","status":"closed","priority":2,"issue_type":"task","assignee":"beads/crew/dave","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:17:30.36625-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-11T18:18:01.015867-08:00","closed_at":"2026-01-11T18:18:01.015867-08:00","close_reason":"PR #1023 was already merged. MCP custom issue types fix is complete."}
+{"id":"bd-ovypp","title":"Review \u0026 merge PR #1023: MCP custom issue types fix","description":"dispatched_by: beads/crew/emma\n\n## PR Review Task\n\n**PR:** https://github.com/steveyegge/beads/pull/1023\n**Author:** marvin-bitterlich\n\n## Summary\nFix Pydantic validation errors when MCP lists issues with custom types (agent, molecule, event, convoy).\n\n## Changes\n- Change IssueType and IssueStatus from Literal to str in models.py\n- Update parameter descriptions in server.py and tools.py\n- Bump version in uv.lock from 0.34.0 to 0.47.0\n\n## Review Checklist\n1. Pull branch locally: `gh pr checkout 1023 --repo steveyegge/beads`\n2. Run tests: `go test ./... \u0026\u0026 cd integrations/beads-mcp \u0026\u0026 uv run pytest`\n3. Verify MCP works with custom types\n4. If all good, merge: `gh pr merge 1023 --repo steveyegge/beads --squash`\n\n## Classification\nEasy-win: Clear bug fix, minimal changes, well-documented reasoning.","status":"closed","priority":2,"issue_type":"task","assignee":"beads/crew/dave","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:17:30.36625-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-11T18:46:13.636455-08:00","closed_at":"2026-01-11T18:46:13.636455-08:00","close_reason":"PR #1023 merged to main"}
 {"id":"bd-ox1o","title":"Code Review Round 2: Beads Refactoring","description":"Second pass code review of Beads codebase. Found 10 HIGH/MEDIUM priority issues.\n\n**HIGH (P2):**\n- bd-6dnt: Duplicated IssueDetails struct (4 definitions)\n- bd-vqh9: init.go is 1928 lines\n- bd-it19: show.go is 1592 lines\n\n**MEDIUM (P3):**\n- bd-qobn: 20+ global variables in main.go\n- bd-0e02: Inconsistent error handling patterns\n- bd-g6m5: Mixed daemon/direct mode logic\n- bd-qe7j: Incomplete TODOs in formula/types.go\n- bd-4sxh: Issue struct ~100 fields\n- bd-yuxq: 262 uses of interface{}\n- bd-jbqx: Repeated validation patterns","status":"closed","priority":2,"issue_type":"epic","created_at":"2025-12-28T19:00:15.483532-08:00","created_by":"beads/crew/dave","updated_at":"2025-12-29T13:40:29.721916-08:00","closed_at":"2025-12-29T13:40:29.721916-08:00","close_reason":"Stale/spurious - test artifacts, merged PRs, or auto-close candidates"}
 {"id":"bd-oxgi","title":"Add mol_type schema field to beads","description":"Add mol_type field to distinguish molecule types (swarm/patrol/work).\n\n## Context\nSwarms need to be distinguishable from regular work molecules. The mol_type field enables:\n- Filtering: bd list --type=swarm \n- Queries: Find all active swarm molecules\n- Coordinator logic: Different handling for different mol types\n\n## Implementation\n1. Add mol_type column to SQLite schema (nullable, default null = work)\n2. Add mol_type to JSONL format\n3. Update create command to accept --mol-type\n4. Update list/ready commands to filter by mol_type\n5. Values: 'swarm', 'patrol', 'work', null (null = work)\n\n## Reference\n~/gt/docs/swarm-architecture.md - 'Data Model' section\n\n## Acceptance\n- bd create --mol-type=swarm works\n- bd list --mol-type=swarm filters correctly\n- Existing molecules work unchanged (backward compatible)","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-28T19:11:07.616818-08:00","created_by":"mayor","updated_at":"2025-12-28T19:50:33.213538-08:00","closed_at":"2025-12-28T19:50:33.213538-08:00"}
 {"id":"bd-oy6c","title":"Bump version in all files","description":"Run ./scripts/bump-version.sh 0.33.2 to update 10 version files. Then run with --commit after info.go is updated.","status":"tombstone","priority":1,"issue_type":"task","created_at":"2025-12-21T16:10:13.759706-08:00","updated_at":"2025-12-21T17:29:31.791368-08:00","deleted_at":"2025-12-21T17:29:31.791368-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"task"}
@@ -1824,6 +1842,7 @@
 {"id":"bd-r4od","title":"Parameterize SQLite busy_timeout in store.go","description":"Modify sqlite.New() to accept configurable busy_timeout.\n\n## Current State\n`internal/storage/sqlite/store.go` hardcodes:\n```go\nconnStr = \"file:\" + path + \"?_pragma=foreign_keys(ON)\u0026_pragma=busy_timeout(30000)\u0026...\"\n```\n\n## Implementation Options\n\n### Option A: Add timeout parameter to New()\n```go\nfunc New(ctx context.Context, path string, busyTimeout time.Duration) (*SQLiteStorage, error)\n```\nPro: Simple, explicit\nCon: Changes function signature (breaking change for callers)\n\n### Option B: Options struct pattern\n```go\ntype Options struct {\n    BusyTimeout time.Duration // default 30s\n}\nfunc New(ctx context.Context, path string, opts *Options) (*SQLiteStorage, error)\n```\nPro: Extensible, nil means defaults\nCon: More boilerplate\n\n### Recommendation: Option A with default\n```go\nfunc New(ctx context.Context, path string) (*SQLiteStorage, error) {\n    return NewWithOptions(ctx, path, 30*time.Second)\n}\n\nfunc NewWithOptions(ctx context.Context, path string, busyTimeout time.Duration) (*SQLiteStorage, error)\n```\n\n## Acceptance Criteria\n- busy_timeout is parameterized in connection string\n- 0 timeout means no waiting (immediate SQLITE_BUSY)\n- All existing callers continue to work (via default wrapper)\n\nPart of bd-olc1","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-13T17:54:46.896222-08:00","updated_at":"2025-12-13T18:05:19.443831-08:00","closed_at":"2025-12-13T18:05:19.443831-08:00","dependencies":[{"issue_id":"bd-r4od","depends_on_id":"bd-59er","type":"blocks","created_at":"2025-12-13T17:55:26.550018-08:00","created_by":"daemon"}]}
 {"id":"bd-r4sn","title":"Phase 2.5: TOON-based daemon sync","description":"Implement TOON-native daemon sync (replaces JSONL sync machinery).\n\n## Overview\nDaemon sync is the final integration point. Replace export/import/merge machinery with TOON-native sync, building on deletion tracking (2.3) and merge optimization (2.4).\n\n## Required Work\n\n### 2.5.1 TOON-based Daemon Sync\n- [ ] Understand current JSONL sync machinery (export.go, import.go, merge.go)\n- [ ] Replace export step with TOON encoding (EncodeTOON)\n- [ ] Replace import step with TOON decoding (DecodeTOON)\n- [ ] Replace merge step with TOON-aware 3-way merge\n- [ ] Update daemon auto-sync to read/write TOON\n- [ ] Verify 5-second debounce still works\n\n### 2.5.2 Deletion Sync Integration\n- [ ] Load deletions.toon during import phase\n- [ ] Apply deletions after merging issues\n- [ ] Ensure deletion TTL respects daemon schedule\n\n### 2.5.3 Testing\n- [ ] Unit tests for daemon sync with TOON\n- [ ] Integration tests with actual daemon operations\n- [ ] Multi-clone sync scenarios with concurrent edits\n- [ ] Performance comparison with JSONL sync\n- [ ] Long-running daemon stability tests\n\n## Success Criteria\n- Daemon reads/writes TOON format (not JSONL)\n- Sync latency comparable to JSONL (\u003c100ms)\n- All 70+ tests passing\n- bdt commands work seamlessly with daemon\n- Multi-clone sync scenarios work correctly","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-19T14:43:20.33132177-07:00","updated_at":"2025-12-21T14:42:25.274362-08:00","closed_at":"2025-12-21T14:42:25.274362-08:00","dependencies":[{"issue_id":"bd-r4sn","depends_on_id":"bd-uz8r","type":"blocks","created_at":"2025-12-19T14:43:20.347724699-07:00","created_by":"daemon"},{"issue_id":"bd-r4sn","depends_on_id":"bd-uwkp","type":"blocks","created_at":"2025-12-19T14:43:20.355379309-07:00","created_by":"daemon"}]}
 {"id":"bd-r53nt","title":"Issue 2","status":"open","priority":1,"issue_type":"task","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:16:14.587222-08:00","created_by":"beads/crew/wolf","updated_at":"2026-01-11T18:16:14.587222-08:00"}
+{"id":"bd-r5p6e","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:34:11.310835-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:34:11.374457-08:00","closed_at":"2026-01-11T19:34:11.374457-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-r6a","title":"Redesign workflow system: templates as native Beads","description":"## Problem\n\nThe current workflow system (YAML templates in cmd/bd/templates/workflows/) is architecturally flawed:\n\n1. **Out-of-band data plane** - YAML files are a parallel system outside Beads itself\n2. **Heavyweight DSL** - YAML is gross; even TOML would have been better, but neither is ideal\n3. **Not graph-native** - Beads IS already a dependency graph with priorities, so why reinvent it?\n4. **Can't use bd commands on templates** - They're opaque YAML, not viewable/editable Beads\n\n## The Right Design\n\n**Templates should be Beads themselves.**\n\nA \"workflow template\" should be:\n- An epic marked as a template (via label, type, or prefix like `tpl-`)\n- Child issues with dependencies between them (using normal bd dep)\n- Titles and descriptions containing `{{variable}}` placeholders\n- Normal priorities that control serialization order\n\n\"Instantiation\" becomes:\n1. Clone the template subgraph (epic + children + dependencies)\n2. Substitute variables in titles/descriptions\n3. Generate new IDs for all cloned issues\n4. Return the new epic ID\n\n## Benefits\n\n- **No YAML** - Templates are just Beads\n- **Use existing tools** - `bd show`, `bd edit`, `bd dep` work on templates\n- **Graph-native** - Dependencies are real Beads dependencies\n- **Simpler codebase** - Remove all the YAML parsing/workflow code\n- **Composable** - Templates can reference other templates\n\n## Tasks\n\n1. Delete the YAML workflow system code (revert recent push + remove existing workflow code)\n2. Design template marking convention (label? type? id prefix?)\n3. Implement `bd template create` or `bd clone --as-template`\n4. Implement `bd template instantiate \u003ctemplate-id\u003e --var key=value`\n5. Migrate version-bump workflow to native Beads template\n6. Update documentation","status":"closed","priority":1,"issue_type":"epic","created_at":"2025-12-17T22:41:57.359643-08:00","updated_at":"2025-12-18T17:42:26.000769-08:00","closed_at":"2025-12-18T13:47:04.632525-08:00"}
 {"id":"bd-r6a.1","title":"Revert/remove YAML workflow system","description":"Revert the recent commit and remove all YAML workflow code:\n\n1. `git revert aae8407a` (the commit we just pushed with workflow fixes)\n2. Remove `cmd/bd/templates/workflows/` directory\n3. Remove workflow.go or gut it to minimal stub\n4. Remove WorkflowTemplate types from internal/types/workflow.go\n5. Remove any workflow-related RPC handlers\n\nKeep only minimal scaffolding if needed for the new template system.","status":"tombstone","priority":0,"issue_type":"task","created_at":"2025-12-17T22:42:07.339684-08:00","updated_at":"2025-12-25T01:21:01.952723-08:00","dependencies":[{"issue_id":"bd-r6a.1","depends_on_id":"bd-r6a","type":"parent-child","created_at":"2025-12-17T22:42:07.340117-08:00","created_by":"daemon"}],"deleted_at":"2025-12-25T01:21:01.952723-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"task"}
 {"id":"bd-r6a.2","title":"Implement subgraph cloning with variable substitution","description":"Core implementation of template instantiation:\n\n1. Add `bd template instantiate \u003ctemplate-id\u003e [--var key=value]...` command\n2. Implement subgraph loading:\n   - Load template epic\n   - Recursively load all children (and their children)\n   - Load all dependencies between issues in the subgraph\n3. Implement variable substitution:\n   - Scan titles and descriptions for `{{name}}` patterns\n   - Replace with provided values\n   - Error on missing required variables (or prompt interactively)\n4. Implement cloning:\n   - Generate new IDs for all issues\n   - Create cloned issues with substituted text\n   - Remap and create dependencies\n5. Return the new epic ID\n\nConsider adding `--dry-run` flag to preview what would be created.","status":"tombstone","priority":1,"issue_type":"task","created_at":"2025-12-17T22:43:25.179848-08:00","updated_at":"2025-12-25T01:21:01.952723-08:00","dependencies":[{"issue_id":"bd-r6a.2","depends_on_id":"bd-r6a","type":"parent-child","created_at":"2025-12-17T22:43:25.180286-08:00","created_by":"daemon"},{"issue_id":"bd-r6a.2","depends_on_id":"bd-r6a.1","type":"blocks","created_at":"2025-12-17T22:44:03.15413-08:00","created_by":"daemon"}],"deleted_at":"2025-12-25T01:21:01.952723-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"task"}
@@ -1883,6 +1902,7 @@
 {"id":"bd-s2xpf","title":"gt prime --state should support --json output","description":"The SessionState struct has JSON tags but outputState() only outputs plain text key:value format. For consistency with other gt commands and machine parsing, --state should support --json.\n\nCurrent:\n  state: normal\n  role: mayor\n\nWith --json:\n  {\"state\": \"normal\", \"role\": \"mayor\"}\n\nLocation: gastown/mayor/rig/internal/cmd/prime.go:1805-1826","status":"open","priority":3,"issue_type":"task","created_at":"2026-01-10T00:45:49.422246-08:00","created_by":"mayor","updated_at":"2026-01-10T17:19:12.221075-08:00"}
 {"id":"bd-s551s","title":"Session ended: gt-gastown-crew-george","status":"closed","priority":2,"issue_type":"event","created_at":"2026-01-07T23:31:36.922142-08:00","created_by":"beads/witness","updated_at":"2026-01-09T21:15:40.686866-08:00","closed_at":"2026-01-09T21:15:40.686866-08:00","close_reason":"Stale session ended events"}
 {"id":"bd-s5kf","title":"Merge: onyx-1767083477016","description":"branch: polecat/onyx-1767083477016\ntarget: main\nsource_issue: onyx-1767083477016\nrig: beads","status":"closed","priority":2,"issue_type":"merge-request","created_at":"2025-12-30T00:37:08.214926-08:00","created_by":"beads/polecats/onyx","updated_at":"2025-12-30T00:54:59.041942-08:00","closed_at":"2025-12-30T00:54:59.041942-08:00","close_reason":"Branch polecat/onyx-1767083477016 no longer exists on remote"}
+{"id":"bd-s7zwg","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:08:01.089618-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:08:01.149353-08:00","closed_at":"2026-01-11T19:08:01.149353-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-sabmf","title":"Fix: bd doctor false positive on thin shim hook (GH#969)","description":"dispatched_by: beads/crew/dave\n\nGitHub issue #969. Doctor incorrectly reports 'pre-commit not calling bd' for valid thin shim hook.","status":"closed","priority":2,"issue_type":"bug","assignee":"beads/crew/giles","created_at":"2026-01-09T22:20:19.331637-08:00","created_by":"beads/crew/dave","updated_at":"2026-01-09T22:58:08.977701-08:00","closed_at":"2026-01-09T22:58:08.977701-08:00","close_reason":"Duplicate of GH#946. Fix already in main (commit bf09f0c6) but not yet released. User on v0.46.0 which predates fix. Next release will include it."}
 {"id":"bd-sal9","title":"bd mol current: soft cursor showing current/next step","description":"Add bd mol current command for molecule navigation orientation.\n\n## Usage\n\nbd mol current [mol-id]\n\nIf mol-id given, show status for that molecule.\nIf not given, infer from in_progress issues assigned to current agent.\n\n## Output\n\nYou're working on molecule gt-abc (Feature X)\n\n  [done] gt-abc.1: Design\n  [done] gt-abc.2: Scaffold  \n  [done] gt-abc.3: Implement\n  [current] gt-abc.4: Write tests [in_progress] \u003c- YOU ARE HERE\n  [pending] gt-abc.5: Documentation\n  [pending] gt-abc.6: Exit decision\n\nProgress: 3/6 steps complete\n\n## Key behaviors\n- Shows full molecule structure with status indicators\n- Highlights current in_progress step\n- If no in_progress, highlights first ready step\n- Works without explicit cursor tracking (inferred from state)\n\n## Implementation notes\n- Query children of mol-id\n- Sort by dependency order\n- Find first in_progress or first ready\n- Format with status indicators\n\n## Gas Town integration\n- gt-lz13: Update templates with nav workflow\n- gt-um6q: Update docs with nav workflow","status":"closed","priority":1,"issue_type":"feature","created_at":"2025-12-22T17:03:30.245964-08:00","updated_at":"2025-12-22T17:36:31.936007-08:00","closed_at":"2025-12-22T17:36:31.936007-08:00"}
 {"id":"bd-sc57","title":"Production Readiness (Optional)","description":"Enable multi-machine deployments with containerization and monitoring.","status":"closed","priority":3,"issue_type":"epic","created_at":"2025-11-07T22:43:31.527617-08:00","updated_at":"2025-11-08T01:06:12.904671-08:00","closed_at":"2025-11-08T01:06:12.904671-08:00","dependencies":[{"issue_id":"bd-sc57","depends_on_id":"bd-wfmw","type":"blocks","created_at":"2025-11-07T22:43:31.528743-08:00","created_by":"daemon"},{"issue_id":"bd-sc57","depends_on_id":"bd-pdjb","type":"blocks","created_at":"2025-11-07T22:43:31.529193-08:00","created_by":"daemon"}]}
@@ -1922,9 +1942,11 @@
 {"id":"bd-t7jq","title":"Add validation config support","description":"Future: Add .beads/config.json support for validation settings (on_create, on_sync: warn|error|none).","status":"closed","priority":4,"issue_type":"task","created_at":"2026-01-01T11:19:09.96198-08:00","created_by":"beads/crew/grip","updated_at":"2026-01-04T15:22:08.70688-08:00","closed_at":"2026-01-01T19:33:42.078778-08:00","close_reason":"Validation config support merged","dependencies":[{"issue_id":"bd-t7jq","depends_on_id":"bd-ou35","type":"parent-child","created_at":"2026-01-01T11:19:22.7728-08:00","created_by":"beads/crew/grip"},{"issue_id":"bd-t7jq","depends_on_id":"bd-gn5r","type":"blocks","created_at":"2026-01-01T11:19:23.985574-08:00","created_by":"beads/crew/grip"}]}
 {"id":"bd-t8ven","title":"gt prime: validate mutually exclusive flags","description":"The --state flag returns early, making --dry-run and --explain have no effect when combined with it. Similarly, --hook has specific behaviors that may conflict.\n\nOptions:\n1. Error on invalid combinations (--state + --explain, --state + --dry-run)\n2. Document that --state is standalone and ignores other flags  \n3. Make flags compose (e.g., --state --explain shows state with explanations)\n\nCurrent behavior is silent - the extra flags are just ignored.\n\nLocation: gastown/mayor/rig/internal/cmd/prime.go:176-179","status":"closed","priority":4,"issue_type":"task","assignee":"gastown/polecats/dementus","created_at":"2026-01-10T00:46:05.489678-08:00","created_by":"mayor","updated_at":"2026-01-10T01:03:32.375432-08:00","closed_at":"2026-01-10T01:03:32.375432-08:00","close_reason":"Added --state, --dry-run, --explain flags with mutual exclusivity validation. --state errors when combined with other flags."}
 {"id":"bd-ta4r","title":"Wisp operations should auto-bypass daemon","description":"During the v0.39.1 release, every wisp operation required --no-daemon flag:\n\nbd --no-daemon mol wisp create beads-release --var version=0.39.1\nbd --no-daemon close bd-eph-xxx\nbd --no-daemon mol burn bd-eph-bv2\n\nSince wisps are ephemeral (Ephemeral=true) and never exported to JSONL, they are inherently local-only. The daemon cannot help with them anyway.\n\nProposal: When operating on bd-eph-* issues or wisp subcommands, auto-detect and bypass the daemon. This would:\n- Reduce friction in wisp workflows\n- Prevent accidental daemon use that would fail anyway\n- Make the ephemeral nature more obvious","status":"closed","priority":3,"issue_type":"feature","created_at":"2025-12-27T22:51:24.409066-08:00","created_by":"beads/crew/emma","updated_at":"2025-12-28T02:10:30.123755-08:00","closed_at":"2025-12-28T02:10:30.123755-08:00"}
+{"id":"bd-ta9dy","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T18:48:39.221633-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T18:48:39.288878-08:00","closed_at":"2026-01-11T18:48:39.288878-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-tbwt6","title":"Test defer issue 3","status":"closed","priority":2,"issue_type":"task","created_at":"2026-01-07T21:30:59.012621-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-09T21:15:41.73122-08:00","closed_at":"2026-01-09T21:15:41.73122-08:00","close_reason":"Test beads - cleanup"}
 {"id":"bd-tbz3","title":"bd init UX Improvements","description":"bd init leaves users with incomplete setup, requiring manual bd doctor --fix. Issues found: (1) git hooks not installed if user declines prompt, (2) no auto-migration when CLI is upgraded, (3) stale merge driver configs from old versions. Fix by making bd init more robust with better defaults and auto-migration.","status":"closed","priority":1,"issue_type":"epic","created_at":"2025-11-21T23:16:00.333543-08:00","updated_at":"2025-12-23T04:20:51.88847-08:00","closed_at":"2025-12-23T04:20:51.88847-08:00"}
 {"id":"bd-tcvh","title":"Test prefix beads","status":"tombstone","priority":2,"issue_type":"task","created_at":"2025-12-27T14:24:41.707092-08:00","created_by":"stevey","updated_at":"2025-12-27T14:24:50.421598-08:00","deleted_at":"2025-12-27T14:24:50.421598-08:00","deleted_by":"daemon","delete_reason":"delete","original_type":"task"}
+{"id":"bd-tfczz","title":"Session ended: gt-beads-refinery","status":"closed","priority":2,"issue_type":"event","owner":"steve.yegge@gmail.com","created_at":"2026-01-11T19:48:31.557461-08:00","created_by":"beads/refinery","updated_at":"2026-01-11T19:48:31.624887-08:00","closed_at":"2026-01-11T19:48:31.624887-08:00","close_reason":"auto-closed session cost wisp","ephemeral":true}
 {"id":"bd-tggf","title":"Code Health Review Dec 2025: Technical Debt Cleanup","description":"Epic grouping technical debt identified in the Dec 16, 2025 code health review.\n\n## Overall Health Grade: B (Solid foundation, needs cleanup)\n\n### P1 (High Priority):\n- bd-74w1: Consolidate duplicate path-finding utilities\n- [deleted:bd-b6xo]: Remove/fix ClearDirtyIssues() race condition\n- [deleted:bd-b3og]: Fix TestImportBugIntegration deadlock\n\n### P2 (Medium Priority):\n- bd-05a8: Split large files (doctor.go, sync.go)\n- bd-qioh: Standardize error handling patterns\n- bd-rgyd: Split queries.go (1586 lines)\n- bd-9g1z: Fix/remove TestFindJSONLPathDefault\n\n### P3 (Low Priority):\n- bd-ork0: Add comments to 30+ ignored errors\n- bd-4nqq: Remove dead test code in info_test.go\n- bd-dhza: Reduce global state in main.go\n\n## Key Areas:\n1. Code duplication in path utilities\n2. Large monolithic files (5 files \u003e1000 lines)\n3. Global state (25+ variables, 3 deprecated)\n4. Silent error suppression (30+ instances)\n5. Test gaps and dead test code\n6. Atomicity risks in batch operations","status":"closed","priority":2,"issue_type":"epic","created_at":"2025-12-16T18:18:58.115507-08:00","updated_at":"2025-12-30T18:12:30.962234-08:00","closed_at":"2025-12-30T16:59:51.322347-08:00","close_reason":"All technical debt cleanup tasks completed: path utilities consolidated, large files split, error handling standardized, dead test code removed, global state reduced, ignored errors documented","dependencies":[{"issue_id":"bd-tggf","depends_on_id":"bd-74w1","type":"blocks","created_at":"2025-12-22T21:00:21.429274-08:00","created_by":"daemon"},{"issue_id":"bd-tggf","depends_on_id":"bd-05a8","type":"blocks","created_at":"2025-12-22T21:00:21.501589-08:00","created_by":"daemon"},{"issue_id":"bd-tggf","depends_on_id":"bd-9g1z","type":"blocks","created_at":"2025-12-22T21:00:21.571116-08:00","created_by":"daemon"},{"issue_id":"bd-tggf","depends_on_id":"bd-qioh","type":"blocks","created_at":"2025-12-22T21:00:21.640589-08:00","created_by":"daemon"},{"issue_id":"bd-tggf","depends_on_id":"bd-rgyd","type":"blocks","created_at":"2025-12-22T21:00:21.710912-08:00","created_by":"daemon"},{"issue_id":"bd-tggf","depends_on_id":"bd-4nqq","type":"blocks","created_at":"2025-12-22T21:00:21.781914-08:00","created_by":"daemon"},{"issue_id":"bd-tggf","depends_on_id":"bd-dhza","type":"blocks","created_at":"2025-12-22T21:00:21.852-08:00","created_by":"daemon"},{"issue_id":"bd-tggf","depends_on_id":"bd-ork0","type":"blocks","created_at":"2025-12-22T21:00:21.930168-08:00","created_by":"daemon"}]}
 {"id":"bd-tglv","title":"Merge: onyx-1767142014545","description":"branch: polecat/onyx-1767142014545\ntarget: main\nsource_issue: onyx-1767142014545\nrig: beads","status":"closed","priority":2,"issue_type":"merge-request","created_at":"2025-12-30T17:05:30.189116-08:00","created_by":"beads/polecats/onyx","updated_at":"2025-12-30T18:12:30.983654-08:00","closed_at":"2025-12-30T18:11:07.809452-08:00"}
 {"id":"bd-thgk","title":"Improve test coverage for internal/compact (18.2% → 70%)","description":"Improve test coverage for internal/compact package from 17% to 70%.\n\n## Current State\n- Coverage: 17.3%\n- Files: compactor.go, git.go, haiku.go\n- Tests: compactor_test.go (minimal tests)\n\n## Functions Needing Tests\n\n### compactor.go (core compaction)\n- [ ] New - needs config validation tests\n- [ ] CompactTier1 - needs single issue compaction tests\n- [ ] CompactTier1Batch - needs batch processing tests\n- [ ] compactSingleWithResult - internal, test via public API\n\n### git.go\n- [ ] GetCurrentCommitHash - needs git repo fixture tests\n\n### haiku.go (AI summarization) - MOCK REQUIRED\n- [ ] NewHaikuClient - needs API key validation tests\n- [ ] SummarizeTier1 - needs mock API response tests\n- [ ] callWithRetry - needs retry logic tests\n- [ ] isRetryable - needs error classification tests\n- [ ] renderTier1Prompt - needs template rendering tests\n\n## Implementation Guide\n\n1. **Mock the Anthropic API:**\n   ```go\n   // Create mock HTTP server\n   server := httptest.NewServer(http.HandlerFunc(func(w http.ResponseWriter, r *http.Request) {\n       json.NewEncoder(w).Encode(map[string]interface{}{\n           \"content\": []map[string]string{{\"text\": \"Summarized content\"}},\n       })\n   }))\n   defer server.Close()\n   \n   // Point client at mock\n   client.baseURL = server.URL\n   ```\n\n2. **Test scenarios:**\n   - Successful compaction with AI summary\n   - API failure with retry\n   - Rate limit handling\n   - Empty issue handling\n   - Large issue truncation\n\n3. **Use test database:**\n   ```go\n   store, cleanup := testutil.NewTestStore(t)\n   defer cleanup()\n   ```\n\n## Success Criteria\n- Coverage ≥ 70%\n- AI calls properly mocked (no real API calls in tests)\n- Retry logic verified\n- Error paths covered\n\n## Run Tests\n```bash\ngo test -v -cover ./internal/compact\ngo test -race ./internal/compact\n```","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-13T20:42:58.455767-08:00","updated_at":"2025-12-23T13:41:10.80832-08:00","closed_at":"2025-12-23T13:41:10.80832-08:00","dependencies":[{"issue_id":"bd-thgk","depends_on_id":"bd-iz5t","type":"parent-child","created_at":"2025-12-23T12:44:07.287377-08:00","created_by":"daemon"}]}
@@ -2003,6 +2025,7 @@
 {"id":"bd-uwkp","title":"Phase 2.4: Git merge driver optimization for TOON format","description":"Optimize git 3-way merge for TOON line-oriented format.\n\n## Overview\nTOON is line-oriented (unlike binary formats), enabling smarter git merge strategies. Implement custom merge driver to handle TOON-specific merge patterns.\n\n## Required Work\n\n### 2.4.1 TOON Merge Driver\n- [ ] Create .git/info/attributes entry for *.toon files\n- [ ] Implement custom merge driver script/command\n- [ ] Handle tabular format row merges (line-based 3-way)\n- [ ] Handle YAML-style format merges\n- [ ] Conflict markers for unsolvable conflicts\n\n### 2.4.2 Merge Patterns\n- [ ] Row addition: both branches add different rows → union\n- [ ] Row deletion: one branch deletes, other modifies → conflict (manual review)\n- [ ] Row modification: concurrent field changes → intelligent merge or conflict\n- [ ] Field ordering changes: ignore (TOON format resilient to order)\n\n### 2.4.3 Testing \u0026 Documentation\n- [ ] Unit tests for merge scenarios (3-way merge logic)\n- [ ] Integration tests with actual git merges\n- [ ] Conflict scenario testing\n- [ ] Documentation of merge strategy\n\n## Success Criteria\n- Git merge handles TOON conflicts intelligently\n- Fewer manual merge conflicts than JSONL\n- Round-trip preserved through merges\n- All 70+ tests still passing\n- Git history stays clean (minimal conflict markers)","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-19T14:43:14.339238776-07:00","updated_at":"2025-12-21T14:42:26.434306-08:00","closed_at":"2025-12-21T14:42:26.434306-08:00","dependencies":[{"issue_id":"bd-uwkp","depends_on_id":"bd-iic1","type":"discovered-from","created_at":"2025-12-19T14:43:14.34427988-07:00","created_by":"daemon"}]}
 {"id":"bd-uxlb","title":"Add bd agent state command for ZFC-compliant state reporting","description":"Add command for agents to write their own state to agent beads.\n\n```bash\nbd agent state \u003cagent-id\u003e \u003cstate\u003e\n# Example: bd agent state gt-mayor running\n# States: idle | running | stuck | stopped | dead\n```\n\nImplementation:\n1. Lookup agent bead by ID (type=agent)\n2. Update agent_state field in description\n3. Update last_activity timestamp\n4. Trigger bd sync if configured\n\nAlso add:\n- bd agent heartbeat \u003cagent-id\u003e - just updates last_activity\n- bd agent show \u003cagent-id\u003e - show agent bead details\n\nThis is the ZFC-compliant way for agents to self-report state.\n\nCross-ref: gt-p2vyo in gastown","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-28T01:49:46.325964-08:00","created_by":"mayor","updated_at":"2025-12-28T01:57:05.839623-08:00","closed_at":"2025-12-28T01:57:05.839623-08:00"}
 {"id":"bd-uyf3","title":"Session ended: gt-beads-crew-emma","status":"closed","priority":2,"issue_type":"event","created_at":"2026-01-06T23:52:08.520371-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-06T23:52:08.556361-08:00","closed_at":"2026-01-06T23:52:08.556361-08:00","close_reason":"auto-closed session event"}
+{"id":"bd-uyq10","title":"Digest: mol-refinery-patrol","description":"Patrol: queue empty, main synced to 355ce734","status":"closed","priority":2,"issue_type":"task","created_at":"2026-01-11T18:45:37.150101-08:00","updated_at":"2026-01-11T18:45:37.150101-08:00","closed_at":"2026-01-11T18:45:37.149985-08:00","close_reason":"Squashed from 11 wisps","dependencies":[{"issue_id":"bd-uyq10","depends_on_id":"bd-wisp-i97","type":"parent-child","created_at":"2026-01-11T18:45:37.151093-08:00","created_by":"beads/refinery"}]}
 {"id":"bd-uyrt4","title":"Session ended: gt-beads-crew-emma","status":"closed","priority":2,"issue_type":"event","created_at":"2026-01-09T12:38:29.302861-08:00","created_by":"beads/crew/emma","updated_at":"2026-01-09T12:38:29.336056-08:00","closed_at":"2026-01-09T12:38:29.336056-08:00","close_reason":"auto-closed session event"}
 {"id":"bd-uz8r","title":"Phase 2.3: TOON deletion tracking","description":"Implement deletion tracking in TOON format.\n\n## Overview\nPhase 2.2 switched storage to TOON format. Phase 2.3 adds deletion tracking in TOON format for propagating deletions across clones.\n\n## Required Work\n\n### 2.3.1 Deletion Tracking (TOON Format)\n- [ ] Implement deletions.toon file (tracking deleted issue records)\n- [ ] Add DeleteTracker struct to record deleted issue IDs and metadata\n- [ ] Update bdt delete command to record in deletions.toon\n- [ ] Design deletion record format (ID, timestamp, reason, hash)\n- [ ] Implement auto-prune of old deletion records (configurable TTL)\n\n### 2.3.2 Sync Propagation\n- [ ] Load deletions.toon during import\n- [ ] Remove deleted issues from local database when imported from remote\n- [ ] Handle edge cases (delete same issue in multiple clones)\n- [ ] Deletion ordering and conflict resolution\n\n### 2.3.3 Testing\n- [ ] Unit tests for deletion tracking\n- [ ] Integration tests for deletion propagation\n- [ ] Multi-clone deletion scenarios\n- [ ] TTL expiration tests\n\n## Success Criteria\n- deletions.toon stores deletion records in TOON format\n- Deletions propagate across clones via git sync\n- Old records auto-prune after TTL\n- All 70+ tests still passing\n- bdt delete command works seamlessly","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-19T14:37:23.722066816-07:00","updated_at":"2025-12-21T14:42:27.491932-08:00","closed_at":"2025-12-21T14:42:27.491932-08:00","dependencies":[{"issue_id":"bd-uz8r","depends_on_id":"bd-iic1","type":"discovered-from","created_at":"2025-12-19T14:37:23.726825771-07:00","created_by":"daemon"}]}
 {"id":"bd-v0x","title":"Auto-detect issue prefix from existing JSONL in 'bd init'","description":"When running `bd init` in a fresh clone with existing JSONL, it should auto-detect the issue prefix from the JSONL file instead of requiring `--prefix`.\n\nCurrently you must specify `--prefix ef` manually. But the JSONL file already contains issues like `ef-1it`, `ef-1jp` etc., so the prefix is known.\n\n**Ideal UX**:\n```\n$ bd init\nDetected issue prefix 'ef' from existing JSONL (38 issues).\n✓ Database initialized...\n```\n\nThis would make fresh clone hydration a single command: `bd init` with no flags.","status":"closed","priority":2,"issue_type":"feature","created_at":"2025-11-27T20:21:21.049215-08:00","updated_at":"2025-12-02T17:11:19.751009583-05:00","closed_at":"2025-11-28T21:57:11.164293-08:00"}
@@ -2113,6 +2136,7 @@
 {"id":"bd-wisp-fbz","title":"Merge and push to main","description":"Merge to main and push. CRITICAL: Notifications come IMMEDIATELY after push.\n\n**Step 1: Merge and Push**\n```bash\ngit checkout main\ngit merge --ff-only temp\ngit push origin main\n```\n\n⚠️ **STOP HERE - DO NOT PROCEED UNTIL STEPS 2-3 COMPLETE**\n\n**Step 2: Send MERGED Notification (REQUIRED - DO THIS IMMEDIATELY)**\n\nRIGHT NOW, before any cleanup, send MERGED mail to Witness:\n\n```bash\ngt mail send \u003crig\u003e/witness -s \"MERGED \u003cpolecat-name\u003e\" -m \"Branch: \u003cbranch\u003e\nIssue: \u003cissue-id\u003e\nMerged-At: $(date -u +%Y-%m-%dT%H:%M:%SZ)\"\n```\n\nThis signals the Witness to nuke the polecat worktree. WITHOUT THIS NOTIFICATION,\nPOLECAT WORKTREES ACCUMULATE INDEFINITELY AND THE LIFECYCLE BREAKS.\n\n**Step 3: Close MR Bead (REQUIRED - DO THIS IMMEDIATELY)**\n\n⚠️ **VERIFICATION BEFORE CLOSING**: Confirm the work is actually on main:\n```bash\n# Get the commit message/issue from the branch\ngit log origin/main --oneline | grep \"\u003cissue-id\u003e\"\n# OR verify the commit SHA is on main:\ngit branch --contains \u003ccommit-sha\u003e | grep main\n```\n\nIf work is NOT on main, DO NOT close the MR bead. Investigate first.\n\n```bash\nbd close \u003cmr-bead-id\u003e --reason \"Merged to main at $(git rev-parse --short HEAD)\"\n```\n\nThe MR bead ID was in the MERGE_READY message or find via:\n```bash\nbd list --type=merge-request --status=open | grep \u003cpolecat-name\u003e\n```\n\n**VALIDATION**: The MR bead's source_issue should be a valid bead ID (gt-xxxxx),\nnot a branch name. If source_issue contains a branch name, flag for investigation.\n\n**Step 4: Archive the MERGE_READY mail (REQUIRED)**\n```bash\ngt mail archive \u003cmerge-ready-message-id\u003e\n```\nThe message ID was tracked when you processed inbox-check.\n\n**Step 5: Cleanup (only after Steps 2-4 confirmed)**\n```bash\ngit branch -d temp\ngit push origin --delete \u003cpolecat-branch\u003e\n```\n\n**VERIFICATION GATE**: You CANNOT proceed to loop-check without:\n- [x] MERGED mail sent to witness\n- [x] MR bead closed\n- [x] MERGE_READY mail archived\n\nIf you skipped notifications or archiving, GO BACK AND DO THEM NOW.\n\nMain has moved. Any remaining branches need rebasing on new baseline.","status":"open","priority":2,"issue_type":"task","created_at":"2026-01-11T14:50:43.33352-08:00","updated_at":"2026-01-11T14:50:43.33352-08:00","dependencies":[{"issue_id":"bd-wisp-fbz","depends_on_id":"bd-wisp-kkf","type":"blocks","created_at":"2026-01-11T14:50:43.348874-08:00","created_by":"beads/refinery"}],"ephemeral":true}
 {"id":"bd-wisp-fm4","title":"Update local installation","description":"Update local bd to the new version.\n\nOption 1 - Homebrew:\n```bash\nbrew upgrade bd\n```\n\nOption 2 - Install script:\n```bash\ncurl -fsSL https://raw.githubusercontent.com/steveyegge/beads/main/scripts/install.sh | bash\n```\n\nVerify:\n```bash\nbd --version\n```\n\nShould show 0.45.0.\n","status":"closed","priority":2,"issue_type":"task","created_at":"2026-01-06T20:07:32.259261-08:00","updated_at":"2026-01-06T20:18:20.106709-08:00","closed_at":"2026-01-06T20:18:20.106709-08:00","close_reason":"Release v0.45.0 complete","dependencies":[{"issue_id":"bd-wisp-fm4","depends_on_id":"bd-wisp-gnr","type":"blocks","created_at":"2026-01-06T20:07:32.286541-08:00","created_by":"beads/crew/dave"},{"issue_id":"bd-wisp-fm4","depends_on_id":"bd-wisp-eh4","type":"blocks","created_at":"2026-01-06T20:07:32.287962-08:00","created_by":"beads/crew/dave"},{"issue_id":"bd-wisp-fm4","depends_on_id":"bd-wisp-04d","type":"blocks","created_at":"2026-01-06T20:07:32.289399-08:00","created_by":"beads/crew/dave"}]}
 {"id":"bd-wisp-gnr","title":"Verify GitHub release","description":"Check the GitHub releases page.\n\nhttps://github.com/steveyegge/beads/releases/tag/v0.45.0\n\nVerify:\n- Release created\n- Binaries attached (linux, darwin, windows)\n- Checksums present\n\n```bash\ngh release view v0.45.0 --json assets --jq '.assets[].name'\n```\n","status":"closed","priority":2,"issue_type":"task","created_at":"2026-01-06T20:07:32.258704-08:00","updated_at":"2026-01-06T20:17:52.237306-08:00","closed_at":"2026-01-06T20:17:52.237306-08:00","close_reason":"All release artifacts verified: GitHub (9 assets), npm 0.45.0, PyPI 0.45.0","dependencies":[{"issue_id":"bd-wisp-gnr","depends_on_id":"bd-wisp-u9o","type":"blocks","created_at":"2026-01-06T20:07:32.282733-08:00","created_by":"beads/crew/dave"}]}
+{"id":"bd-wisp-i97","title":"mol-refinery-patrol","description":"Merge queue processor patrol loop.\n\nThe Refinery is the Engineer in the engine room. You process polecat branches, merging them to main one at a time with sequential rebasing.\n\n**The Scotty Test**: Before proceeding past any failure, ask yourself: \"Would Scotty walk past a warp core leak because it existed before his shift?\"\n\n## Merge Flow\n\nThe Refinery receives MERGE_READY mail from Witnesses when polecats complete work:\n\n```\nWitness                    Refinery                      Git\n   │                          │                           │\n   │ MERGE_READY              │                           │\n   │─────────────────────────\u003e│                           │\n   │                          │                           │\n   │                    (verify branch)                   │\n   │                          │ fetch \u0026 rebase            │\n   │                          │──────────────────────────\u003e│\n   │                          │                           │\n   │                    (run tests)                       │\n   │                          │                           │\n   │                    (if pass)                         │\n   │                          │ merge \u0026 push              │\n   │                          │──────────────────────────\u003e│\n   │                          │                           │\n   │ MERGED                   │                           │\n   │\u003c─────────────────────────│                           │\n   │                          │                           │\n```\n\nAfter successful merge, Refinery sends MERGED mail back to Witness so it can\ncomplete cleanup (nuke the polecat worktree).","status":"closed","priority":2,"issue_type":"epic","assignee":"beads/refinery","created_at":"2026-01-11T18:41:41.403781-08:00","updated_at":"2026-01-11T18:48:24.943006-08:00","closed_at":"2026-01-11T18:48:24.943006-08:00","close_reason":"Patrol cycle: queue empty, no branches to merge, local main synced to 764f3747","ephemeral":true}
 {"id":"bd-wisp-kkf","title":"Handle test failures","description":"**VERIFICATION GATE**: This step enforces the Beads Promise.\n\nIf tests PASSED: This step auto-completes. Proceed to merge.\n\nIf tests FAILED:\n1. Diagnose: Is this a branch regression or pre-existing on main?\n2. If branch caused it:\n   - Abort merge\n   - Notify polecat: \"Tests failing. Please fix and resubmit.\"\n   - Skip to loop-check\n3. If pre-existing on main:\n   - Option A: Fix it yourself (you're the Engineer!)\n   - Option B: File a bead: bd create --type=bug --priority=1 --title=\"...\"\n\n**GATE REQUIREMENT**: You CANNOT proceed to merge-push without:\n- Tests passing, OR\n- Fix committed, OR\n- Bead filed for the failure\n\nThis is non-negotiable. Never disavow. Never \"note and proceed.\" ","status":"open","priority":2,"issue_type":"task","created_at":"2026-01-11T14:50:43.333236-08:00","updated_at":"2026-01-11T14:50:43.333236-08:00","dependencies":[{"issue_id":"bd-wisp-kkf","depends_on_id":"bd-wisp-734","type":"blocks","created_at":"2026-01-11T14:50:43.347585-08:00","created_by":"beads/refinery"}],"ephemeral":true}
 {"id":"bd-wisp-qm8","title":"mol-refinery-patrol","description":"Merge queue processor patrol loop.\n\nThe Refinery is the Engineer in the engine room. You process polecat branches, merging them to main one at a time with sequential rebasing.\n\n**The Scotty Test**: Before proceeding past any failure, ask yourself: \"Would Scotty walk past a warp core leak because it existed before his shift?\"\n\n## Merge Flow\n\nThe Refinery receives MERGE_READY mail from Witnesses when polecats complete work:\n\n```\nWitness                    Refinery                      Git\n   │                          │                           │\n   │ MERGE_READY              │                           │\n   │─────────────────────────\u003e│                           │\n   │                          │                           │\n   │                    (verify branch)                   │\n   │                          │ fetch \u0026 rebase            │\n   │                          │──────────────────────────\u003e│\n   │                          │                           │\n   │                    (run tests)                       │\n   │                          │                           │\n   │                    (if pass)                         │\n   │                          │ merge \u0026 push              │\n   │                          │──────────────────────────\u003e│\n   │                          │                           │\n   │ MERGED                   │                           │\n   │\u003c─────────────────────────│                           │\n   │                          │                           │\n```\n\nAfter successful merge, Refinery sends MERGED mail back to Witness so it can\ncomplete cleanup (nuke the polecat worktree).","status":"open","priority":2,"issue_type":"epic","created_at":"2026-01-10T20:51:46.780686-08:00","updated_at":"2026-01-10T20:51:46.780686-08:00","ephemeral":true}
 {"id":"bd-wisp-r4u","title":"Burn and respawn or loop","description":"End of patrol cycle decision.\n\n**Step 1: Estimate remaining context**\n\nAsk yourself:\n- Have I processed many branches this cycle?\n- Is the conversation getting long?\n- Am I starting to lose track of earlier context?\n\nRule of thumb: If you've done 3+ merges or processed significant cleanup work,\nit's time for a fresh session.\n\n**Step 2: Decision tree**\n\nIf queue non-empty AND context LOW:\n- Squash this wisp to digest\n- Spawn fresh patrol wisp\n- Return to inbox-check\n\nIf queue empty OR context HIGH OR good stopping point:\n- Squash wisp with summary digest\n- Use `gt handoff` for clean session transition:\n\n```bash\ngt handoff -s \"Patrol complete\" -m \"Merged X branches, Y tests passed.\nQueue: empty/N remaining\nNext: [any notes for successor]\"\n```\n\n**Why gt handoff?**\n- Sends handoff mail to yourself with context\n- Respawns with fresh Claude instance\n- SessionStart hook runs gt prime\n- Successor picks up from your hook\n\n**DO NOT just exit.** Always use `gt handoff` for proper lifecycle.","status":"open","priority":2,"issue_type":"task","created_at":"2026-01-11T14:50:43.334942-08:00","updated_at":"2026-01-11T14:50:43.334942-08:00","dependencies":[{"issue_id":"bd-wisp-r4u","depends_on_id":"bd-wisp-vgq","type":"blocks","created_at":"2026-01-11T14:50:43.356968-08:00","created_by":"beads/refinery"}],"ephemeral":true}