diff --git a/.beads/issues.jsonl b/.beads/issues.jsonl
index e9ab1bfe..530574af 100644
--- a/.beads/issues.jsonl
+++ b/.beads/issues.jsonl
@@ -227,7 +227,7 @@
 {"id":"bd-a62m","title":"Update version to 0.33.2 in version.go","description":"Edit cmd/bd/version.go line 17:\n\n```go\nVersion = \"0.33.2\"\n```\n\nVerify with: `grep 'Version =' cmd/bd/version.go`","status":"tombstone","priority":1,"issue_type":"task","created_at":"2025-12-21T16:10:13.760384-08:00","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"}
 {"id":"bd-a9y3","title":"Add composite index (status, priority) for common list queries","description":"SearchIssues and GetReadyWork frequently filter by status and sort by priority. Currently uses two separate indexes.\n\n**Common query pattern (queries.go:1646-1647):**\n```sql\nWHERE status = ? \nORDER BY priority ASC, created_at DESC\n```\n\n**Problem:** Index merge or full scan when both columns are used.\n\n**Solution:** Add migration:\n```sql\nCREATE INDEX IF NOT EXISTS idx_issues_status_priority ON issues(status, priority);\n```\n\n**Expected impact:** Faster bd list, bd ready with filters. Particularly noticeable at 10K+ issues.","status":"closed","priority":3,"issue_type":"task","created_at":"2025-12-22T22:58:50.515275-08:00","updated_at":"2025-12-22T23:15:13.838976-08:00","closed_at":"2025-12-22T23:15:13.838976-08:00","dependencies":[{"issue_id":"bd-a9y3","depends_on_id":"bd-h0we","type":"discovered-from","created_at":"2025-12-22T22:58:50.516072-08:00","created_by":"daemon"}]}
 {"id":"bd-aay","title":"Warn on invalid depends_on references in workflow templates","description":"workflow.go:780-781 silently skips invalid dependency names. Should log a warning when a depends_on reference doesn't match any task ID in the template.","status":"tombstone","priority":4,"issue_type":"task","created_at":"2025-12-17T22:23:04.325253-08:00","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":"task"}
-{"id":"bd-abjw","title":"Consider consolidating config.yaml parsing into shared utility","description":"Multiple places parse config.yaml with custom structs:\n\n1. **autoimport.go:148** - `localConfig{SyncBranch}`\n2. **main.go:310** - strings.Contains for no-db (fragile, see bd-r6k2)\n3. **doctor.go:863** - strings.Contains for no-db (fragile, see bd-r6k2)\n4. **internal/config/config.go** - Uses viper (but caches at startup, problematic for tests)\n\nConsider creating a shared utility in `internal/configfile/` or extending the viper config:\n\n```go\n// internal/configfile/yaml.go\ntype YAMLConfig struct {\n    SyncBranch string `yaml:\"sync-branch\"`\n    NoDb       bool   `yaml:\"no-db\"`\n    IssuePrefix string `yaml:\"issue-prefix\"`\n    Author     string `yaml:\"author\"`\n}\n\nfunc LoadYAML(beadsDir string) (*YAMLConfig, error) {\n    // Parse config.yaml with proper YAML library\n}\n```\n\nBenefits:\n- Single source of truth for config.yaml structure\n- Proper YAML parsing everywhere\n- Easier to add new config fields\n\nTrade-off: May add complexity for simple one-off reads.","status":"open","priority":4,"issue_type":"task","created_at":"2025-12-07T02:03:26.067311-08:00","updated_at":"2025-12-07T02:03:26.067311-08:00"}
+{"id":"bd-abjw","title":"Consider consolidating config.yaml parsing into shared utility","description":"Multiple places parse config.yaml with custom structs:\n\n1. **autoimport.go:148** - `localConfig{SyncBranch}`\n2. **main.go:310** - strings.Contains for no-db (fragile, see bd-r6k2)\n3. **doctor.go:863** - strings.Contains for no-db (fragile, see bd-r6k2)\n4. **internal/config/config.go** - Uses viper (but caches at startup, problematic for tests)\n\nConsider creating a shared utility in `internal/configfile/` or extending the viper config:\n\n```go\n// internal/configfile/yaml.go\ntype YAMLConfig struct {\n    SyncBranch string `yaml:\"sync-branch\"`\n    NoDb       bool   `yaml:\"no-db\"`\n    IssuePrefix string `yaml:\"issue-prefix\"`\n    Author     string `yaml:\"author\"`\n}\n\nfunc LoadYAML(beadsDir string) (*YAMLConfig, error) {\n    // Parse config.yaml with proper YAML library\n}\n```\n\nBenefits:\n- Single source of truth for config.yaml structure\n- Proper YAML parsing everywhere\n- Easier to add new config fields\n\nTrade-off: May add complexity for simple one-off reads.","status":"hooked","priority":4,"issue_type":"task","assignee":"beads/polecats/obsidian","created_at":"2025-12-07T02:03:26.067311-08:00","updated_at":"2025-12-30T16:46:46.228572-08:00"}
 {"id":"bd-adoe","title":"Add --hard flag to bd cleanup to permanently cull tombstones before cutoff date","description":"Currently tombstones persist for 30 days before cleanup prunes them. Need an official way to force-cull tombstones earlier than the default TTL, for scenarios like cleaning house after extended absence where resurrection from old clones is not a concern. Proposed: bd cleanup --hard --older-than N to bypass the 30-day tombstone TTL.","status":"tombstone","priority":2,"issue_type":"feature","created_at":"2025-12-16T01:17:31.064914-08:00","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-aec5439f","title":"Update LINTING.md with current baseline","description":"After cleanup, document the remaining acceptable baseline in LINTING.md so we can track regression.","status":"tombstone","priority":2,"issue_type":"task","created_at":"2025-10-27T18:53:10.38679-07:00","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-ag35","title":"Add daemon RPC endpoints for config and stale check","description":"Two TODOs request daemon RPC endpoints:\n\n1. cmd/bd/create.go:208 - Add RPC method to get config in daemon mode\n2. cmd/bd/mol_stale.go:67 - Add RPC endpoint for stale check\n\nThese would allow the CLI to query the daemon for configuration and staleness checks instead of reading directly.\n\nFiles:\n- cmd/bd/create.go:208\n- cmd/bd/mol_stale.go:67","status":"closed","priority":3,"issue_type":"feature","created_at":"2025-12-28T16:32:38.113203-08:00","created_by":"stevey","updated_at":"2025-12-30T15:44:43.354686-08:00","closed_at":"2025-12-30T07:00:00.209327-08:00","close_reason":"Implemented GetConfig and MolStale RPC endpoints. CLI commands now work in daemon mode."}
@@ -400,7 +400,7 @@
 {"id":"bd-hhv3","title":"Test and document molecular chemistry commands","description":"## Context\n\nImplemented the molecular chemistry UX commands per the design docs:\n- gastown/mayor/rig/docs/molecular-chemistry.md\n- gastown/mayor/rig/docs/chemistry-design-changes.md\n\nCommit: cadf798b\n\n## New Commands to Test\n\n| Command | Purpose |\n|---------|---------|\n| `bd pour \u003cproto\u003e` | Instantiate proto as persistent mol |\n| `bd wisp create \u003cproto\u003e` | Instantiate proto as ephemeral wisp |\n| `bd hook [--agent]` | Inspect what's on an agent's hook |\n\n## Enhanced Commands to Test\n\n| Command | Changes |\n|---------|---------|\n| `bd mol spawn --pour` | New flag, `--persistent` deprecated |\n| `bd mol bond --pour` | Force liquid phase on wisp target |\n| `bd pin --for \u003cagent\u003e --start` | Chemistry workflow support |\n\n## Test Scenarios\n\n1. **bd pour**: Create persistent mol from a proto\n   - Verify creates in .beads/ (not .beads-wisp/)\n   - Verify variable substitution works\n   - Verify --dry-run works\n\n2. **bd wisp create**: Create ephemeral wisp from proto\n   - Verify creates in .beads-wisp/\n   - Verify bd wisp list shows it\n   - Verify bd mol squash works\n   - Verify bd mol burn works\n\n3. **bd hook**: Inspect pinned work\n   - Pin something, verify bd hook shows it\n   - Test --agent flag\n   - Test --json output\n\n4. **bd pin --for**: Assign work to agent\n   - Verify sets pinned=true\n   - Verify sets assignee\n   - Verify --start sets status=in_progress\n\n5. **bd mol bond --pour**: Force liquid on wisp target\n   - Bond a proto to a wisp with --pour\n   - Verify spawned issues are in .beads/\n\n## Documentation\n\n- Update CLAUDE.md with new commands\n- Add examples to --help output (already done)\n- Consider adding to docs/CLI_REFERENCE.md\n\n## Code Review\n\n- Check for edge cases\n- Verify error messages are helpful\n- Ensure --json output is consistent","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-22T02:22:10.906646-08:00","updated_at":"2025-12-22T02:55:37.983703-08:00","closed_at":"2025-12-22T02:55:37.983703-08:00"}
 {"id":"bd-hj0s","title":"Add 'convoy' issue type with reactive completion","description":"Add convoy as a new issue type with reactive completion semantics.\n\nBehavior:\n- Convoy has list of tracked issues (via 'tracks' relation)\n- When all tracked issues close (including wontfix), convoy auto-closes\n- Supports cross-prefix tracking (convoy in hq-* tracks gt-*, bd-*)\n\nImplementation:\n- New type: convoy\n- Reactive completion trigger on tracked issue closure\n- Query support: 'bd list --type=convoy'\n\nRelated: hq-7h8jx (Convoy System epic in town beads)","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-29T18:47:02.011011-08:00","created_by":"mayor","updated_at":"2025-12-30T15:44:43.361813-08:00","closed_at":"2025-12-30T00:05:13.515078-08:00","close_reason":"Implemented convoy type with reactive completion","dependencies":[{"issue_id":"bd-hj0s","depends_on_id":"bd-3roq","type":"blocks","created_at":"2025-12-29T18:47:10.59211-08:00","created_by":"daemon"}]}
 {"id":"bd-hkr6","title":"GH#518: Document bd setup command","description":"bd setup is undiscoverable. Add to README/docs. Currently only findable by grepping source. See GitHub issue #518.","status":"tombstone","priority":2,"issue_type":"task","created_at":"2025-12-16T01:03:54.664668-08:00","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":"task"}
-{"id":"bd-hlsw","title":"Add sync resilience guardrails for forced pushes and prefix mismatches","description":"Beads can get into unrecoverable sync states when remote forces pushes occur (e.g., rebases) combined with prefix mismatches from multi-worker scenarios. Add detection, prevention, and auto-recovery features to handle this gracefully.","status":"open","priority":2,"issue_type":"epic","created_at":"2025-12-14T10:40:14.872875259-07:00","updated_at":"2025-12-14T10:40:14.872875259-07:00"}
+{"id":"bd-hlsw","title":"Add sync resilience guardrails for forced pushes and prefix mismatches","description":"Beads can get into unrecoverable sync states when remote forces pushes occur (e.g., rebases) combined with prefix mismatches from multi-worker scenarios. Add detection, prevention, and auto-recovery features to handle this gracefully.","status":"hooked","priority":2,"issue_type":"epic","assignee":"beads/polecats/topaz","created_at":"2025-12-14T10:40:14.872875259-07:00","updated_at":"2025-12-30T16:47:03.621154-08:00"}
 {"id":"bd-hlsw.3","title":"Auto-recovery mode (bd sync --auto-recover)","description":"Add bd sync --auto-recover flag that: detects problematic sync state, backs up .beads/issues.db with timestamp, rebuilds DB from JSONL atomically, verifies consistency, reports what was fixed. Provides safety valve when sync integrity fails.","status":"closed","priority":3,"issue_type":"task","created_at":"2025-12-14T10:40:20.599836875-07:00","updated_at":"2025-12-30T15:44:43.352476-08:00","closed_at":"2025-12-30T07:02:42.636957-08:00","close_reason":"Implemented --auto-recover flag with detection, backup, rebuild, verify, and reporting. Added tests.","dependencies":[{"issue_id":"bd-hlsw.3","depends_on_id":"bd-hlsw","type":"parent-child","created_at":"2025-12-14T10:40:20.600435888-07:00","created_by":"daemon"}]}
 {"id":"bd-hlsw.4","title":"Sync branch integrity guards","description":"Track sync branch parent commit. If sync branch was force-pushed, warn user and require confirmation before proceeding. Add option to reset to remote if user accepts rebase. Prevents silent corruption from forced pushes.","status":"open","priority":3,"issue_type":"task","created_at":"2025-12-14T10:40:20.645402352-07:00","updated_at":"2025-12-30T15:44:43.348683-08:00","dependencies":[{"issue_id":"bd-hlsw.4","depends_on_id":"bd-hlsw","type":"parent-child","created_at":"2025-12-14T10:40:20.646425761-07:00","created_by":"daemon"}]}
 {"id":"bd-hlyr","title":"Merge: bd-m8ro","description":"branch: polecat/max\ntarget: main\nsource_issue: bd-m8ro\nrig: beads","status":"closed","priority":2,"issue_type":"merge-request","created_at":"2025-12-23T20:45:40.218445-08:00","updated_at":"2025-12-23T21:21:57.69886-08:00","closed_at":"2025-12-23T21:21:57.69886-08:00"}
@@ -492,13 +492,13 @@
 {"id":"bd-likt","title":"Add daemon RPC support for gate commands","description":"Add daemon RPC support for gate commands.\n\n## Current State\nGate commands require --no-daemon flag because they use direct SQLite access:\n- Gate create needs to write await_type, await_id, timeout_ns, waiters fields\n- Gate wait needs to update waiters JSON array\n- Daemon RPC doesnt have methods for these operations\n\n## Implementation\n\n### 1. Add RPC methods to internal/rpc/protocol.go\n\n```go\n// Gate operations\ntype GateCreateArgs struct {\n    Title     string        \\`json:\"title\"\\`\n    AwaitType string        \\`json:\"await_type\"\\`\n    AwaitID   string        \\`json:\"await_id\"\\`\n    Timeout   time.Duration \\`json:\"timeout\"\\`\n    Waiters   []string      \\`json:\"waiters\"\\`\n}\n\ntype GateCreateResult struct {\n    Issue *types.Issue \\`json:\"issue\"\\`\n}\n\ntype GateListArgs struct {\n    All bool \\`json:\"all\"\\` // Include closed gates\n}\n\ntype GateListResult struct {\n    Gates []*types.Issue \\`json:\"gates\"\\`\n}\n\ntype GateWaitArgs struct {\n    GateID  string   \\`json:\"gate_id\"\\`\n    Waiters []string \\`json:\"waiters\"\\` // Additional waiters to add\n}\n\ntype GateWaitResult struct {\n    Gate        *types.Issue \\`json:\"gate\"\\`\n    AddedCount  int          \\`json:\"added_count\"\\`\n}\n```\n\n### 2. Add handler methods to internal/daemon/rpc_handler.go\n\n```go\nfunc (h *RPCHandler) GateCreate(ctx context.Context, args *rpc.GateCreateArgs) (*rpc.GateCreateResult, error) {\n    now := time.Now()\n    gate := \u0026types.Issue{\n        Title:     args.Title,\n        IssueType: types.TypeGate,\n        Status:    types.StatusOpen,\n        Priority:  1,\n        Assignee:  \"deacon/\",\n        Wisp:      true,\n        AwaitType: args.AwaitType,\n        AwaitID:   args.AwaitID,\n        Timeout:   args.Timeout,\n        Waiters:   args.Waiters,\n        CreatedAt: now,\n        UpdatedAt: now,\n    }\n    gate.ContentHash = gate.ComputeContentHash()\n    \n    if err := h.store.CreateIssue(ctx, gate, h.actor); err != nil {\n        return nil, err\n    }\n    \n    return \u0026rpc.GateCreateResult{Issue: gate}, nil\n}\n\nfunc (h *RPCHandler) GateList(ctx context.Context, args *rpc.GateListArgs) (*rpc.GateListResult, error) {\n    gateType := types.TypeGate\n    filter := types.IssueFilter{IssueType: \u0026gateType}\n    if !args.All {\n        openStatus := types.StatusOpen\n        filter.Status = \u0026openStatus\n    }\n    \n    gates, err := h.store.SearchIssues(ctx, \"\", filter)\n    if err != nil {\n        return nil, err\n    }\n    \n    return \u0026rpc.GateListResult{Gates: gates}, nil\n}\n\nfunc (h *RPCHandler) GateWait(ctx context.Context, args *rpc.GateWaitArgs) (*rpc.GateWaitResult, error) {\n    gate, err := h.store.GetIssue(ctx, args.GateID)\n    if err != nil {\n        return nil, err\n    }\n    if gate.IssueType != types.TypeGate {\n        return nil, fmt.Errorf(\"%s is not a gate\", args.GateID)\n    }\n    \n    // Merge waiters (dedupe)\n    waiterSet := make(map[string]bool)\n    for _, w := range gate.Waiters {\n        waiterSet[w] = true\n    }\n    added := 0\n    for _, w := range args.Waiters {\n        if !waiterSet[w] {\n            gate.Waiters = append(gate.Waiters, w)\n            waiterSet[w] = true\n            added++\n        }\n    }\n    \n    if added \u003e 0 {\n        // Update via store\n        updates := map[string]interface{}{\n            \"waiters\": gate.Waiters,\n        }\n        if err := h.store.UpdateIssue(ctx, args.GateID, updates, h.actor); err != nil {\n            return nil, err\n        }\n    }\n    \n    return \u0026rpc.GateWaitResult{Gate: gate, AddedCount: added}, nil\n}\n```\n\n### 3. Register methods in daemon\n\nIn internal/daemon/server.go, register the new methods:\n```go\nrpc.RegisterMethod(\"gate.create\", h.GateCreate)\nrpc.RegisterMethod(\"gate.list\", h.GateList)\nrpc.RegisterMethod(\"gate.wait\", h.GateWait)\n```\n\n### 4. Add client methods to internal/rpc/client.go\n\n```go\nfunc (c *Client) GateCreate(ctx context.Context, args *GateCreateArgs) (*GateCreateResult, error) {\n    var result GateCreateResult\n    err := c.Call(ctx, \"gate.create\", args, \u0026result)\n    return \u0026result, err\n}\n\nfunc (c *Client) GateList(ctx context.Context, args *GateListArgs) (*GateListResult, error) {\n    var result GateListResult\n    err := c.Call(ctx, \"gate.list\", args, \u0026result)\n    return \u0026result, err\n}\n\nfunc (c *Client) GateWait(ctx context.Context, args *GateWaitArgs) (*GateWaitResult, error) {\n    var result GateWaitResult\n    err := c.Call(ctx, \"gate.wait\", args, \u0026result)\n    return \u0026result, err\n}\n```\n\n### 5. Update cmd/bd/gate.go to use daemon\n\n```go\n// In gateCreateCmd Run:\nif daemonClient != nil {\n    result, err := daemonClient.GateCreate(ctx, \u0026rpc.GateCreateArgs{\n        Title:     title,\n        AwaitType: awaitType,\n        AwaitID:   awaitID,\n        Timeout:   timeout,\n        Waiters:   notifyAddrs,\n    })\n    if err != nil {\n        FatalError(\"gate create: %v\", err)\n    }\n    gate = result.Issue\n} else {\n    // Existing direct store code\n}\n```\n\n## Files to Modify\n\n1. **internal/rpc/protocol.go** - Add Gate*Args/Result types\n2. **internal/daemon/rpc_handler.go** - Add handler methods\n3. **internal/daemon/server.go** - Register methods\n4. **internal/rpc/client.go** - Add client methods\n5. **cmd/bd/gate.go** - Use daemon client when available\n\n## Testing\n\n```bash\n# Start daemon\nbd daemon start\n\n# Test via daemon (should work without --no-daemon)\nbd gate create --await timer:5m --notify beads/dave\nbd gate list\nbd gate wait \u003cid\u003e --notify beads/alice\n\n# Verify daemon handled it\nbd daemons logs . | grep gate\n```\n\n## Success Criteria\n- All gate commands work without --no-daemon\n- Same behavior in daemon vs direct mode\n- Waiters array updates correctly via RPC\n- Tests pass for RPC gate operations","status":"closed","priority":3,"issue_type":"task","created_at":"2025-12-23T12:13:25.778412-08:00","updated_at":"2025-12-23T13:45:58.398604-08:00","closed_at":"2025-12-23T13:45:58.398604-08:00","dependencies":[{"issue_id":"bd-likt","depends_on_id":"bd-udsi","type":"discovered-from","created_at":"2025-12-23T12:13:36.174822-08:00","created_by":"daemon"},{"issue_id":"bd-likt","depends_on_id":"bd-iz5t","type":"parent-child","created_at":"2025-12-23T12:44:07.891992-08:00","created_by":"daemon"}]}
 {"id":"bd-lk39","title":"Add composite index (issue_id, event_type) on events table","description":"GetCloseReason and GetCloseReasonsForIssues filter by both issue_id and event_type.\n\n**Query (queries.go:355-358):**\n```sql\nSELECT comment FROM events\nWHERE issue_id = ? AND event_type = ?\nORDER BY created_at DESC LIMIT 1\n```\n\n**Problem:** Currently uses idx_events_issue but must filter event_type in memory.\n\n**Solution:** Add migration:\n```sql\nCREATE INDEX IF NOT EXISTS idx_events_issue_type ON events(issue_id, event_type);\n```\n\n**Priority:** Low - events table is typically small relative to issues.","status":"closed","priority":4,"issue_type":"task","created_at":"2025-12-22T22:58:54.070587-08:00","updated_at":"2025-12-22T23:15:13.841988-08:00","closed_at":"2025-12-22T23:15:13.841988-08:00","dependencies":[{"issue_id":"bd-lk39","depends_on_id":"bd-h0we","type":"discovered-from","created_at":"2025-12-22T22:58:54.071286-08:00","created_by":"daemon"}]}
 {"id":"bd-ll2n","title":"Move relate/unrelate under dep command","description":"Make relate and unrelate subcommands of dep (dep relate, dep unrelate). They're dependency operations and belong there.","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-28T12:59:10.379321-08:00","created_by":"stevey","updated_at":"2025-12-28T13:04:02.520266-08:00","closed_at":"2025-12-28T13:04:02.520266-08:00"}
-{"id":"bd-llfl","title":"Improve test coverage for cmd/bd CLI (26.2% → 50%)","description":"The main CLI package (cmd/bd) has only 26.2% test coverage. CLI commands should have at least 50% coverage to ensure reliability.\n\nKey areas with low/no coverage:\n- daemon_autostart.go (multiple 0% functions)\n- compact.go (several 0% functions)\n- Various command handlers\n\nCurrent coverage: 26.2%\nTarget coverage: 50%","notes":"## Progress Update (2025-12-23)\n\n### Tests Added\nAdded 683 lines of new tests across 3 files:\n- cmd/bd/daemon_config_test.go (144 lines)\n- cmd/bd/utils_test.go (484 lines)  \n- cmd/bd/autostart_test.go (55 additional lines)\n\n### Functions Now Tested\n- daemon_config.go: ensureBeadsDir, getPIDFilePath, getLogFilePath, getSocketPathForPID\n- daemon_autostart.go: determineSocketPath, isDaemonRunningQuiet\n- activity.go: printEvent\n- cleanup.go: showCleanupDeprecationHint\n- upgrade.go: pluralize\n- wisp.go: formatTimeAgo\n- list.go: pinIndicator, sortIssues\n- hooks.go: FormatHookWarnings, isRebaseInProgress, hasBeadsJSONL\n- template.go: extractIDSuffix\n- thanks.go: getContributorsSorted\n\n### Coverage Results\n- Before: 22.5%\n- After: 23.1%\n- Delta: +0.6%\n\n### Remaining Work\nMost remaining untested code (77%) involves:\n1. Daemon/RPC operations (runDaemonLoop, tryAutoStartDaemon, etc.)\n2. Command handlers that require database/daemon setup\n3. Git operations (runPreCommitHook, runPostMergeHook, etc.)\n\nTo reach 50%, would need to:\n- Add integration tests with mocked daemon\n- Add scripttest tests for command handlers\n- Add more database-dependent tests\n\nCommit: 4f949c19","status":"open","priority":2,"issue_type":"task","created_at":"2025-12-13T20:43:03.123341-08:00","updated_at":"2025-12-30T15:05:14.617238-08:00"}
+{"id":"bd-llfl","title":"Improve test coverage for cmd/bd CLI (26.2% → 50%)","description":"The main CLI package (cmd/bd) has only 26.2% test coverage. CLI commands should have at least 50% coverage to ensure reliability.\n\nKey areas with low/no coverage:\n- daemon_autostart.go (multiple 0% functions)\n- compact.go (several 0% functions)\n- Various command handlers\n\nCurrent coverage: 26.2%\nTarget coverage: 50%","notes":"## Progress Update (2025-12-23)\n\n### Tests Added\nAdded 683 lines of new tests across 3 files:\n- cmd/bd/daemon_config_test.go (144 lines)\n- cmd/bd/utils_test.go (484 lines)  \n- cmd/bd/autostart_test.go (55 additional lines)\n\n### Functions Now Tested\n- daemon_config.go: ensureBeadsDir, getPIDFilePath, getLogFilePath, getSocketPathForPID\n- daemon_autostart.go: determineSocketPath, isDaemonRunningQuiet\n- activity.go: printEvent\n- cleanup.go: showCleanupDeprecationHint\n- upgrade.go: pluralize\n- wisp.go: formatTimeAgo\n- list.go: pinIndicator, sortIssues\n- hooks.go: FormatHookWarnings, isRebaseInProgress, hasBeadsJSONL\n- template.go: extractIDSuffix\n- thanks.go: getContributorsSorted\n\n### Coverage Results\n- Before: 22.5%\n- After: 23.1%\n- Delta: +0.6%\n\n### Remaining Work\nMost remaining untested code (77%) involves:\n1. Daemon/RPC operations (runDaemonLoop, tryAutoStartDaemon, etc.)\n2. Command handlers that require database/daemon setup\n3. Git operations (runPreCommitHook, runPostMergeHook, etc.)\n\nTo reach 50%, would need to:\n- Add integration tests with mocked daemon\n- Add scripttest tests for command handlers\n- Add more database-dependent tests\n\nCommit: 4f949c19","status":"hooked","priority":2,"issue_type":"task","assignee":"beads/polecats/opal","created_at":"2025-12-13T20:43:03.123341-08:00","updated_at":"2025-12-30T16:47:00.427047-08:00"}
 {"id":"bd-lo4","title":"Test pinned issue","status":"tombstone","priority":2,"issue_type":"task","created_at":"2025-12-18T21:44:49.031385-08:00","updated_at":"2025-12-18T21:47:25.055109-08:00","deleted_at":"2025-12-18T21:47:25.055109-08:00","deleted_by":"daemon","delete_reason":"delete","original_type":"task"}
 {"id":"bd-lrj8","title":"Technical debt: Scattered TODOs should be tracked as issues","description":"Multiple TODO comments exist in the codebase that should be tracked as proper issues:\n\n1. cmd/bd/migrate_hash_ids.go:24 - 'Consider integrating into bd doctor migration detection'\n2. cmd/bd/migrate_tombstones.go:72 - Same\n3. cmd/bd/migrate_sync.go:16 - Same\n4. cmd/bd/migrate_issues.go:15 - Same\n5. cmd/bd/create.go:164 - 'Switch to target repo for multi-repo support'\n6. cmd/bd/create.go:208 - 'Add RPC method to get config in daemon mode'\n7. cmd/bd/daemon_logger.go:131 - 'Remove this once all callers are updated'\n8. cmd/bd/mol_stale.go:67 - 'Add RPC endpoint for stale check'\n9. cmd/bd/sync_test.go:444 - 'Refactor to use direct import logic'\n10. cmd/bd/jira.go:633 - 'In a full implementation, fetch Jira issue and compare timestamps'\n11. internal/formula/types.go:170,174,179,186,210 - Multiple 'Not yet implemented' TODOs\n12. internal/importer/importer_test.go:1010 - 'Test hangs due to database deadlock'\n\nConsider:\n1. Running 'grep -r TODO' periodically to find new ones\n2. Adding a lint rule to discourage inline TODOs\n3. Converting each to a bd issue with proper tracking\n\nLocation: Various files across codebase","status":"closed","priority":4,"issue_type":"chore","created_at":"2025-12-28T15:32:57.125279-08:00","created_by":"beads/crew/dave","updated_at":"2025-12-28T16:34:10.911155-08:00","closed_at":"2025-12-28T16:34:10.911155-08:00","dependencies":[{"issue_id":"bd-lrj8","depends_on_id":"bd-784c","type":"parent-child","created_at":"2025-12-28T15:38:04.33312-08:00","created_by":"daemon"}]}
 {"id":"bd-lsv4","title":"GH#444: Fix inconsistent status naming in_progress vs in-progress","description":"Documentation uses in-progress (hyphen) but code expects in_progress (underscore). Update all docs to use canonical in_progress. See GitHub issue #444.","status":"tombstone","priority":2,"issue_type":"bug","created_at":"2025-12-16T01:03:14.349425-08:00","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-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-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-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":"open","priority":2,"issue_type":"task","assignee":"beads/polecats/onyx","created_at":"2025-12-14T14:25:17.414916-08:00","updated_at":"2025-12-30T15:05:14.596828-08:00","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"}]}
+{"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":"hooked","priority":2,"issue_type":"task","assignee":"beads/polecats/garnet","created_at":"2025-12-14T14:25:17.414916-08:00","updated_at":"2025-12-30T16:47:06.975502-08:00","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"}]}
 {"id":"bd-lz49","title":"Add gate fields: await_type, await_id, timeout, waiters","description":"Add gate-specific fields to the Issue type.\n\n## New Fields\n- await_type: string - Type of condition (gh:run, gh:pr, timer, human, mail)\n- await_id: string - Identifier for the condition\n- timeout: duration - Max time to wait before escalation\n- waiters: []string - Mail addresses to notify when gate clears\n\n## Implementation\n- Add fields to Issue struct in internal/types/types.go\n- Update SQLite schema for new columns\n- Add JSONL serialization/deserialization\n- Update import/export logic","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-23T11:44:32.720196-08:00","updated_at":"2025-12-23T12:00:03.837691-08:00","closed_at":"2025-12-23T12:00:03.837691-08:00","dependencies":[{"issue_id":"bd-lz49","depends_on_id":"bd-udsi","type":"parent-child","created_at":"2025-12-23T11:44:52.738823-08:00","created_by":"daemon"},{"issue_id":"bd-lz49","depends_on_id":"bd-2v0f","type":"blocks","created_at":"2025-12-23T11:44:56.269351-08:00","created_by":"daemon"}]}
 {"id":"bd-m0tl","title":"bd create -f crashes with nil pointer dereference","description":"GitHub issue #674. The markdown import feature crashes at markdown.go:338 because global variables (store, ctx, actor) aren't initialized when createIssuesFromMarkdown is called. The function uses globals set by cobra command framework but is being called before they're ready. Need to either initialize globals at start of function or pass them as parameters.","status":"closed","priority":1,"issue_type":"bug","created_at":"2025-12-21T14:35:14.813012-08:00","updated_at":"2025-12-21T15:41:14.600953-08:00","closed_at":"2025-12-21T15:41:14.600953-08:00"}
 {"id":"bd-m164","title":"Add 0.33.2 to versionChanges in info.go","description":"Add new entry at the TOP of versionChanges array in cmd/bd/info.go:\n\n```go\n{\n    Version: \"0.33.2\",\n    Date:    \"2025-12-21\",\n    Changes: []string{\n        // Add notable changes here\n    },\n},\n```\n\nCopy changes from CHANGELOG.md [Unreleased] section.","status":"tombstone","priority":1,"issue_type":"task","created_at":"2025-12-21T16:10:13.761218-08:00","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"}
@@ -507,6 +507,7 @@
 {"id":"bd-m8ro","title":"Improve test coverage for internal/rpc (47.5% → 60%)","description":"The RPC package has only 47.5% test coverage. RPC is the communication layer for daemon operations.\n\nCurrent coverage: 47.5%\nTarget coverage: 60%","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-13T20:43:09.515299-08:00","updated_at":"2025-12-23T22:42:11.921388-08:00","closed_at":"2025-12-23T22:42:11.921388-08:00"}
 {"id":"bd-m964","title":"Consider FTS5 for text search at scale","description":"SearchIssues uses LIKE patterns for text search which can't use indexes.\n\n**Current query (queries.go:1475-1477):**\n```sql\n(title LIKE ? OR description LIKE ? OR id LIKE ?)\n```\n\n**Problem:** Full table scan on every text search. At 100K+ issues, this becomes slow.\n\n**SQLite FTS5 solution:**\n```sql\nCREATE VIRTUAL TABLE issues_fts USING fts5(\n  id, title, description, design, notes,\n  content='issues',\n  content_rowid='rowid'\n);\n\n-- Triggers to keep FTS in sync\nCREATE TRIGGER issues_ai AFTER INSERT ON issues BEGIN\n  INSERT INTO issues_fts(rowid, id, title, description, design, notes)\n  VALUES (new.rowid, new.id, new.title, new.description, new.design, new.notes);\nEND;\n-- (similar for UPDATE, DELETE)\n```\n\n**Trade-offs:**\n- Database size increase (~30-50% for text content)\n- Additional write overhead (trigger execution)\n- Better search capabilities (ranking, phrase search)\n\n**Decision needed:** Is full-text search a priority feature? Current LIKE search may be acceptable for most use cases.\n\n**Benchmark first:** Measure SearchIssues at 100K scale before implementing.","status":"open","priority":4,"issue_type":"feature","created_at":"2025-12-22T22:58:56.466121-08:00","updated_at":"2025-12-22T22:58:56.466121-08:00","dependencies":[{"issue_id":"bd-m964","depends_on_id":"bd-h0we","type":"discovered-from","created_at":"2025-12-22T22:58:56.466764-08:00","created_by":"daemon"}]}
 {"id":"bd-mh4w","title":"Rename 'bond' to 'spawn' for instantiation","description":"Rename the bd mol bond command to bd mol spawn for instantiating protos.\n  \n- Rename molBondCmd to molSpawnCmd\n- Update command Use/Short/Long descriptions  \n- Keep 'bond' available for the new bonding feature\n- Update all documentation references\n- Add 'protomolecule' as easter egg alias for 'proto'","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-21T00:58:44.529026-08:00","updated_at":"2025-12-21T01:19:42.942819-08:00","closed_at":"2025-12-21T01:19:42.942819-08:00","dependencies":[{"issue_id":"bd-mh4w","depends_on_id":"bd-o5xe","type":"parent-child","created_at":"2025-12-21T00:59:51.167902-08:00","created_by":"daemon"}]}
+{"id":"bd-mhhb","title":"Read operations should not modify database file","description":"Read-only operations (bd list, bd ready, bd show) modify the database file. Every open sets WAL pragma, runs schema/migrations, and checkpoints on close. Need sqlite.NewReadOnly() that opens with mode=ro, skips WAL/schema/migrations, and skips checkpoint. See GH#804.","status":"closed","priority":1,"issue_type":"bug","created_at":"2025-12-30T16:27:13.416643-08:00","created_by":"beads/crew/emma","updated_at":"2025-12-30T16:46:49.921614-08:00","closed_at":"2025-12-30T16:46:49.921614-08:00","close_reason":"Implemented read-only mode for SQLite. Read commands now use NewReadOnly() which opens with mode=ro, skips WAL pragma/schema/migrations, and skips checkpoint on close."}
 {"id":"bd-mol-0qm","title":"mol-beads-release","description":"attached_args: Release v0.38.0 - execute each step in order, verify before proceeding to next\n\nRelease checklist for beads version 0.38.0.\n\nThis molecule ensures all release steps are completed properly.\nVariable: 0.38.0 - target version (e.g., 0.35.0)\n\n## Step: update-release-notes\nUpdate cmd/bd/info.go with release notes for 0.38.0.\n\nAdd a new VersionChange entry at the top of versionChanges slice:\n```go\n{\n    Version: \"0.38.0\",\n    Date:    \"YYYY-MM-DD\",\n    Changes: []string{\n        \"NEW: Feature description\",\n        \"FIX: Bug fix description\",\n        \"IMPROVED: Enhancement description\",\n    },\n},\n```\n\nRun `git log --oneline v\u003cprevious\u003e..HEAD` to see what changed.\n\n## Step: update-changelog\nUpdate CHANGELOG.md with detailed release notes.\n\nAdd a new section after [Unreleased]:\n```markdown\n## [0.38.0] - YYYY-MM-DD\n\n### Added\n- **Feature name** (issue-id) - Description\n\n### Changed\n- **Change description** (issue-id)\n\n### Fixed\n- **Bug fix** (issue-id) - Description\n```\n\nSort by importance, not chronologically.\nNeeds: update-release-notes\n\n## Step: bump-version\nRun the version bump script.\n\n```bash\n./scripts/bump-version.sh 0.38.0\n```\n\nThis updates version in all files:\n- cmd/bd/version.go\n- .claude-plugin/*.json\n- integrations/beads-mcp/pyproject.toml\n- npm-package/package.json\n- Hook templates\n\nNeeds: update-changelog\n\n## Step: run-tests\nRun tests and verify lint passes.\n\n```bash\ngo test -short ./...\n```\n\nCI will run full lint, but fix any obvious issues first.\nNeeds: bump-version\n\n## Step: commit-release\nCommit the release changes.\n\n```bash\ngit add -A\ngit commit -m \"chore: bump version to v0.38.0\"\n```\n\nNeeds: run-tests\n\n## Step: push-and-tag\nPush commit and create release tag.\n\n```bash\ngit push origin main\ngit tag v0.38.0\ngit push origin v0.38.0\n```\n\nThis triggers GitHub Actions release workflow.\nNeeds: commit-release\n\n## Step: wait-for-ci\nWait for GitHub Actions to complete.\n\nMonitor: https://github.com/steveyegge/beads/actions\n\nCI will:\n- Build binaries via GoReleaser\n- Create GitHub Release with assets\n- Publish to npm (@beads/bd)\n- Publish to PyPI (beads-mcp)\n- Update Homebrew tap\n\nWait until all jobs succeed (~5-10 min).\nNeeds: push-and-tag\n\n## Step: verify-release\nVerify the release is complete.\n\n```bash\n# Check GitHub release\ngh release view v0.38.0\n\n# Check Homebrew\nbrew update \u0026\u0026 brew info steveyegge/beads/bd\n\n# Check npm\nnpm view @beads/bd version\n\n# Check PyPI\npip index versions beads-mcp\n```\n\nNeeds: wait-for-ci\n\n## Step: update-local\nUpdate local installations.\n\n```bash\n# Upgrade Homebrew\nbrew upgrade steveyegge/beads/bd\n\n# Or install from source\n./scripts/bump-version.sh 0.38.0 --install\n\n# Install MCP locally\npip install -e integrations/beads-mcp\n\n# Restart daemons\npkill -f \"bd daemon\" || true\n```\n\nVerify: `bd --version` shows 0.38.0\nNeeds: verify-release\n\n## Step: manual-publish\n(Optional) Manual publish if CI failed.\n\n```bash\n# npm (requires npm login)\n./scripts/bump-version.sh 0.38.0 --publish-npm\n\n# PyPI (requires TWINE credentials)\n./scripts/bump-version.sh 0.38.0 --publish-pypi\n\n# Or both\n./scripts/bump-version.sh 0.38.0 --publish-all\n```\n\nOnly needed if CI publishing failed.\nNeeds: wait-for-ci","status":"tombstone","priority":2,"issue_type":"molecule","created_at":"2025-12-27T00:29:46.694495-08:00","updated_at":"2025-12-28T01:24:39.173644-08:00","deleted_at":"2025-12-28T01:24:39.173644-08:00","deleted_by":"daemon","delete_reason":"delete","original_type":"molecule"}
 {"id":"bd-mol-0rq","title":"Verify npm package","description":"Confirm npm package published.\n\n```bash\nnpm show @beads/bd version\n```\n\nShould show 0.99.0-test.\n\nAlso check: https://www.npmjs.com/package/@beads/bd","status":"tombstone","priority":2,"issue_type":"task","created_at":"2025-12-29T17:09:12.467054-08:00","updated_at":"2025-12-29T17:09:32.480437-08:00","deleted_at":"2025-12-29T17:09:32.480437-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"task"}
 {"id":"bd-mol-0x4","title":"Preflight: Pull latest","description":"Ensure we're up to date with origin.\n\n```bash\ngit pull --rebase\n```\n\nResolve any conflicts before proceeding.","status":"tombstone","priority":2,"issue_type":"task","created_at":"2025-12-29T16:29:32.299205-08:00","updated_at":"2025-12-29T17:02:15.202404-08:00","close_reason":"Already up to date","deleted_at":"2025-12-29T17:02:15.202404-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"task"}
@@ -577,7 +578,7 @@
 {"id":"bd-mol-xxg","title":"Verify version consistency","description":"Confirm all versions match 0.99.0-test.\n\n```bash\ngrep 'Version = ' cmd/bd/version.go\njq -r '.version' .claude-plugin/plugin.json\njq -r '.version' npm-package/package.json\ngrep 'version = ' integrations/beads-mcp/pyproject.toml\n```\n\nAll should show 0.99.0-test.","status":"tombstone","priority":2,"issue_type":"task","created_at":"2025-12-29T17:09:12.46579-08:00","updated_at":"2025-12-29T17:09:32.480437-08:00","deleted_at":"2025-12-29T17:09:32.480437-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"task"}
 {"id":"bd-mol-yxv","title":"Update info.go versionChanges","description":"Add entry to versionChanges in cmd/bd/info.go.\n\nThis powers `bd info --whats-new` for agents.\n\n```go\n\"0.39.0\": {\n    \"summary\": \"Brief description\",\n    \"changes\": []string{\n        \"Key change 1\",\n        \"Key change 2\",\n    },\n},\n```\n\nFocus on workflow-impacting changes agents need to know.","status":"tombstone","priority":2,"issue_type":"task","created_at":"2025-12-27T19:34:09.557636-08:00","updated_at":"2025-12-28T01:24:39.212106-08:00","dependencies":[{"issue_id":"bd-mol-yxv","depends_on_id":"bd-mol-937","type":"blocks","created_at":"2025-12-27T19:34:09.594033-08:00","created_by":"beads/crew/dave"}],"deleted_at":"2025-12-28T01:24:39.212106-08:00","deleted_by":"daemon","delete_reason":"delete","original_type":"task"}
 {"id":"bd-mol-z5v","title":"Update info.go versionChanges","description":"Add entry to versionChanges in cmd/bd/info.go.\n\nThis powers `bd info --whats-new` for agents.\n\n```go\n\"0.41.0\": {\n    \"summary\": \"Brief description\",\n    \"changes\": []string{\n        \"Key change 1\",\n        \"Key change 2\",\n    },\n},\n```\n\nFocus on workflow-impacting changes agents need to know.","status":"tombstone","priority":2,"issue_type":"task","created_at":"2025-12-29T16:29:32.299762-08:00","updated_at":"2025-12-29T17:02:15.202404-08:00","close_reason":"Added v0.41.0 to versionChanges","deleted_at":"2025-12-29T17:02:15.202404-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"task"}
-{"id":"bd-mql4","title":"getLocalSyncBranch silently ignores YAML parse errors","description":"In autoimport.go:170-172, YAML parsing errors are silently ignored. If a user has malformed YAML in config.yaml, sync-branch will just silently be empty with no feedback.\n\nRecommendation: Add debug logging since this function is only called during auto-import, and debugging silent failures is painful.\n\nAdd: debug.Logf(\"Warning: failed to parse config.yaml: %v\", err)","status":"open","priority":4,"issue_type":"task","created_at":"2025-12-07T02:03:44.217728-08:00","updated_at":"2025-12-07T02:03:44.217728-08:00"}
+{"id":"bd-mql4","title":"getLocalSyncBranch silently ignores YAML parse errors","description":"In autoimport.go:170-172, YAML parsing errors are silently ignored. If a user has malformed YAML in config.yaml, sync-branch will just silently be empty with no feedback.\n\nRecommendation: Add debug logging since this function is only called during auto-import, and debugging silent failures is painful.\n\nAdd: debug.Logf(\"Warning: failed to parse config.yaml: %v\", err)","status":"closed","priority":4,"issue_type":"task","assignee":"beads/polecats/quartz","created_at":"2025-12-07T02:03:44.217728-08:00","updated_at":"2025-12-30T16:50:13.838626-08:00","closed_at":"2025-12-30T16:50:13.838626-08:00","close_reason":"Added debug.Logf calls in getLocalSyncBranch and isNoDbModeConfigured to log YAML parse errors instead of silently ignoring them"}
 {"id":"bd-muw","title":"Add empty tasks validation in workflow create","description":"workflow.go:321 will panic if wf.Tasks is empty. Add validation that len(wf.Tasks) \u003e 0 before accessing wf.Tasks[0].","status":"tombstone","priority":3,"issue_type":"bug","created_at":"2025-12-17T22:23:00.75707-08:00","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-mv6h","title":"Add test coverage for external dep edge cases","description":"During code review of bd-zmmy, identified missing test coverage:\n\n1. RemoveDependency with external ref target (will fail - see bd-a3sj)\n2. GetBlockedIssues with mix of local and external blockers\n3. GetDependencyTree with external deps\n4. AddDependency cycle detection with external refs (should be skipped?)\n5. External dep resolution with WAL mode database\n6. External dep resolution when target project has no .beads directory\n7. External dep resolution with invalid external: format variations\n\nPriority 2 because bd-a3sj is a real bug that tests would catch.","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-21T23:45:37.50093-08:00","updated_at":"2025-12-22T22:32:09.515096-08:00","closed_at":"2025-12-22T22:32:09.515096-08:00","dependencies":[{"issue_id":"bd-mv6h","depends_on_id":"bd-zmmy","type":"discovered-from","created_at":"2025-12-21T23:45:37.501495-08:00","created_by":"daemon"}]}
 {"id":"bd-mwl7","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## 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\n### Distributed Model (like Go modules)\nEach formula lives in its own repo:\n```\ngithub.com/anthropics/mol-code-review/\n├── formula.json      # The formula\n├── README.md         # Documentation\n└── CHANGELOG.md      # Version history\n```\n\n### Optional Registry (for discovery)\n```\ngithub.com/anthropics/mol-mall/\n└── registry.json     # Index pointing to formula repos\n```\n\n## Child Issues\n\n1. `bd mol export` - Proto → Formula file\n2. `bd mol promote` - Distilled proto → Catalog proto (one step)\n3. `bd mol install` - GitHub → Local proto\n4. `bd mol update` - Check for newer versions\n5. `bd mol search` - Find formulas (GitHub API)\n6. `bd mol publish` - Push formula to GitHub repo\n7. Formula versioning - Version field + git tag integration\n8. Installation tracking - .beads/installed.json\n\n## ID Namespace Design\n\n| Entity | ID Format | Example |\n|--------|-----------|---------|\n| Formula (GitHub) | `github.com/org/repo` | `github.com/anthropics/mol-code-review` |\n| Catalog proto (local) | `mol-name` | `mol-code-review` |\n| Distilled proto | `\u003cdb\u003e-proto-xxx` | `bd-proto-a7f` |\n| Poured instance | `\u003cdb\u003e-mol-xxx` | `gt-mol-b8c` |\n| Wisp instance | `\u003cdb\u003e-wisp-xxx` | `hq-wisp-d9e` |\n","status":"closed","priority":2,"issue_type":"epic","created_at":"2025-12-25T12:05:05.848017-08:00","updated_at":"2025-12-25T12:09:39.767832-08:00","closed_at":"2025-12-25T12:09:39.767832-08:00"}
@@ -719,7 +720,7 @@
 {"id":"bd-s00m.4","title":"Migration: Convert pinned work items to hooked","description":"Migrate existing pinned beads that represent work-on-hook to use 'hooked' status.\n\n## Migration Logic\n\n```sql\nUPDATE issues \nSET status = 'hooked'\nWHERE status = 'pinned' \n  AND issue_type NOT IN ('agent', 'role')\n```\n\n## What Stays Pinned\n\n- Agent identity beads (gt-mayor, gt-witness-gastown, etc.)\n- Role definition beads (gt-mayor-role, etc.)\n\n## What Becomes Hooked\n\n- Molecules on hooks (mol_type field set)\n- Regular issues/tasks that were pinned to hooks\n\n## Verification\n\nAfter migration:\n- bd list --status=pinned should only show agents/roles\n- bd list --status=hooked should show work on hooks","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-28T22:17:13.872171-08:00","created_by":"stevey","updated_at":"2025-12-28T22:36:09.039612-08:00","closed_at":"2025-12-28T22:36:09.039612-08:00","dependencies":[{"issue_id":"bd-s00m.4","depends_on_id":"bd-s00m","type":"parent-child","created_at":"2025-12-28T22:17:13.872786-08:00","created_by":"daemon"},{"issue_id":"bd-s00m.4","depends_on_id":"bd-s00m.1","type":"blocks","created_at":"2025-12-28T22:17:22.168228-08:00","created_by":"daemon"}]}
 {"id":"bd-s0qf","title":"GH#405: Fix prefix parsing with hyphens - multi-hyphen prefixes parsed incorrectly","description":"Fixed: ExtractIssuePrefix was falling back to first-hyphen for word-like suffixes, breaking multi-hyphen prefixes like 'hacker-news' and 'me-py-toolkit'.","status":"tombstone","priority":2,"issue_type":"bug","created_at":"2025-12-16T01:13:56.951359-08:00","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-s1pz","title":"Merge: bd-u2sc.4","description":"branch: polecat/Logger\ntarget: main\nsource_issue: bd-u2sc.4\nrig: beads","status":"closed","priority":3,"issue_type":"merge-request","created_at":"2025-12-23T13:45:52.412757-08:00","updated_at":"2025-12-23T19:12:08.356689-08:00","closed_at":"2025-12-23T19:12:08.356689-08:00"}
-{"id":"bd-s2t","title":"wish: a 'continue' or similar cmd/flag which means alter last issue","description":"so many time I create an issue and then have another thought: 'oh, before I did X and it crashed there was ZZZ happening' or 'actually that is P4 not P2'. It would be nice if when `bd {cmd}` is used without a {title} or {id} it just adds or updates the most recently touched issue.","status":"open","priority":3,"issue_type":"task","assignee":"beads/polecats/opal","created_at":"2025-12-08T06:46:37.529160416-07:00","updated_at":"2025-12-30T15:05:14.672768-08:00"}
+{"id":"bd-s2t","title":"wish: a 'continue' or similar cmd/flag which means alter last issue","description":"so many time I create an issue and then have another thought: 'oh, before I did X and it crashed there was ZZZ happening' or 'actually that is P4 not P2'. It would be nice if when `bd {cmd}` is used without a {title} or {id} it just adds or updates the most recently touched issue.","status":"in_progress","priority":3,"issue_type":"task","assignee":"beads/polecats/jasper","created_at":"2025-12-08T06:46:37.529160416-07:00","updated_at":"2025-12-30T16:47:37.015148-08:00"}
 {"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-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-sh4c","title":"Improve test coverage for cmd/bd/setup (28.4% → 50%)","description":"The setup package has only 28.4% test coverage. Setup commands are critical for first-time user experience.\n\nCurrent coverage: 28.4%\nTarget coverage: 50%","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-13T20:43:04.409346-08:00","updated_at":"2025-12-23T22:37:13.494999-08:00","closed_at":"2025-12-23T22:37:13.494999-08:00"}
@@ -738,7 +739,7 @@
 {"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-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-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":"open","priority":2,"issue_type":"epic","created_at":"2025-12-16T18:18:58.115507-08:00","updated_at":"2025-12-25T01:21:01.961139-08:00","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-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":"hooked","priority":2,"issue_type":"epic","assignee":"beads/polecats/ruby","created_at":"2025-12-16T18:18:58.115507-08:00","updated_at":"2025-12-30T16:47:10.9165-08:00","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-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"}]}
 {"id":"bd-ti1m","title":"Test hooked styling","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-28T22:33:47.135871-08:00","created_by":"beads/crew/emma","updated_at":"2025-12-28T22:34:26.00871-08:00","closed_at":"2025-12-28T22:34:26.00871-08:00"}
 {"id":"bd-tj00","title":"Update local installation","description":"go build -o ~/.local/bin/bd ./cmd/bd \u0026\u0026 codesign -s - ~/.local/bin/bd","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-20T21:53:20.616907-08:00","updated_at":"2025-12-20T21:55:42.756171-08:00","closed_at":"2025-12-20T21:55:42.756171-08:00","dependencies":[{"issue_id":"bd-tj00","depends_on_id":"bd-an4s","type":"parent-child","created_at":"2025-12-20T21:53:20.619834-08:00","created_by":"daemon"},{"issue_id":"bd-tj00","depends_on_id":"bd-9l0h","type":"blocks","created_at":"2025-12-20T21:53:29.817989-08:00","created_by":"daemon"}]}
@@ -763,7 +764,7 @@
 {"id":"bd-udsi","title":"Async Gates for Agent Coordination","description":"Agents need an async primitive for waiting on external events (CI completion, API responses, human approval). Gates are wisp issues that block until external conditions are met, managed by the Deacon.\n\n## Core Concepts\n\n**Gate** = wisp issue that blocks until external condition is met\n- Type: gate\n- Phase: wisp (never synced, ephemeral)\n- Assignee: deacon/ (Deacon monitors it)\n- Fields: await_type, await_id, timeout, waiters[]\n\n**Await Types:**\n- gh:run:\u003cid\u003e - GitHub Actions run completion\n- gh:pr:\u003cid\u003e - PR merged/closed\n- timer:\u003cduration\u003e - Simple delay\n- human:\u003cprompt\u003e - Human approval required\n- mail:\u003cpattern\u003e - Wait for mail matching pattern\n\n## Open Questions\n- Should gates live in wisp storage or main storage with wisp flag?\n- Do we need a gate catalog (like molecule catalog)?\n- Should waits-for dep type work with gates?","status":"closed","priority":1,"issue_type":"epic","created_at":"2025-12-23T11:44:02.711062-08:00","updated_at":"2025-12-23T12:24:43.537615-08:00","closed_at":"2025-12-23T12:24:43.537615-08:00"}
 {"id":"bd-ujz5","title":"Explore wiki-style documentation structure","description":"Our docs are growing into a book. Evaluate options for wiki-like structure:\n\n**Options to evaluate:**\n- GitHub Wiki (built-in, limited features)\n- mdBook (Rust, CLI-friendly, produces HTML/PDF/ePub)\n- MkDocs / Material for MkDocs (Python, beautiful themes)\n- Docusaurus (React, powerful but complex)\n- Plain markdown with good structure (current approach)\n\n**Requirements:**\n- Git-backed (version control)\n- Markdown-native (agents can edit)\n- Table of contents / navigation\n- Cross-linking between pages\n- Searchable\n- Can be hosted on GitHub Pages\n\n**Deliverables:**\n- Recommendation with pros/cons\n- If switching: migration plan\n- If staying with markdown: structure guidelines for wiki-like organization\n\nReferences:\n- https://squidfunk.github.io/mkdocs-material/alternatives/\n- https://www.archbee.com/blog/gitbook-alternatives","status":"closed","priority":3,"issue_type":"task","created_at":"2025-12-24T18:23:23.665509-08:00","updated_at":"2025-12-25T22:55:41.578876-08:00","closed_at":"2025-12-25T22:55:41.578876-08:00"}
 {"id":"bd-ul59","title":"Update molecular chemistry docs with discoveries","description":"Document recent discoveries about molecule/epic relationship and lifecycle:\n\n**Layer Cake (corrected order):**\n```\nFormulas (YAML compile-time macros)\n    ↓\nProtos (template label, read-only)\n    ↓\nMolecules (pour, bond, squash, burn)\n    ↓\nEpics (parent-child, dependencies) ← DATA PLANE\n    ↓\nIssues (JSONL, git-backed) ← STORAGE\n```\n\n**Key insight:** Molecules work without protos - you can create ad-hoc molecules.\nProtos are templates FOR molecules, not the other way around.\n\n**New concepts to document:**\n1. Orphan vs Stale matrix (blocking × assigned dimensions)\n2. Graph pressure as staleness indicator (not time)\n3. Parallelism via absence of depends_on (default parallel, opt-in sequential)\n4. progress.Completed/Total are computed, not stored\n5. WaitsFor: all-children for dynamic fanout gates\n\n**Common pitfalls for agents:**\n- Thinking phases/steps imply sequence (NO - deps do)\n- Confusing protos with molecules\n- Temporal language inverting dependencies\n- Forgetting to squash/burn wisps\n\n**Consider splitting docs:**\n- molecules.md → conceptual overview\n- formulas.md → YAML syntax reference\n- lifecycle.md → pour/squash/burn/bond operations\n- patterns.md → Christmas Ornament, factory assembly, etc.","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-24T18:23:23.968937-08:00","updated_at":"2025-12-24T19:30:49.011831-08:00","closed_at":"2025-12-24T19:30:49.011831-08:00"}
-{"id":"bd-umbf","title":"Design contributor namespace isolation for beads pollution prevention","description":"## Problem\n\nWhen contributors work on beads-the-project using beads-the-tool, their personal work-tracking issues leak into PRs. The .beads/issues.jsonl is intentionally tracked (it's the project's issue database), but contributors' local issues pollute the diff.\n\nThis is a recursion problem unique to self-hosting projects.\n\n## Possible Solutions to Explore\n\n1. **Contributor namespaces** - Each contributor gets a private prefix (e.g., `bd-steve-xxxx`) that's gitignored or filtered\n2. **Separate database** - Contributors use BEADS_DIR pointing elsewhere for personal tracking\n3. **Issue ownership/visibility flags** - Mark issues as \"local-only\" vs \"project\"\n4. **Prefix-based filtering** - Configure which prefixes are committed vs ignored\n\n## Design Considerations\n\n- Should be zero-friction for contributors (no manual setup)\n- Must not break existing workflows\n- Needs to work with sync/collaboration features\n- Consider: what if a \"personal\" issue graduates to \"project\" issue?\n\n## Expansion Needed\n\nThis is a placeholder. Needs detailed design exploration before implementation.","status":"open","priority":2,"issue_type":"feature","created_at":"2025-12-13T18:00:29.638743-08:00","updated_at":"2025-12-13T18:00:41.345673-08:00"}
+{"id":"bd-umbf","title":"Design contributor namespace isolation for beads pollution prevention","description":"## Problem\n\nWhen contributors work on beads-the-project using beads-the-tool, their personal work-tracking issues leak into PRs. The .beads/issues.jsonl is intentionally tracked (it's the project's issue database), but contributors' local issues pollute the diff.\n\nThis is a recursion problem unique to self-hosting projects.\n\n## Possible Solutions to Explore\n\n1. **Contributor namespaces** - Each contributor gets a private prefix (e.g., `bd-steve-xxxx`) that's gitignored or filtered\n2. **Separate database** - Contributors use BEADS_DIR pointing elsewhere for personal tracking\n3. **Issue ownership/visibility flags** - Mark issues as \"local-only\" vs \"project\"\n4. **Prefix-based filtering** - Configure which prefixes are committed vs ignored\n\n## Design Considerations\n\n- Should be zero-friction for contributors (no manual setup)\n- Must not break existing workflows\n- Needs to work with sync/collaboration features\n- Consider: what if a \"personal\" issue graduates to \"project\" issue?\n\n## Expansion Needed\n\nThis is a placeholder. Needs detailed design exploration before implementation.","status":"hooked","priority":2,"issue_type":"feature","assignee":"beads/polecats/onyx","created_at":"2025-12-13T18:00:29.638743-08:00","updated_at":"2025-12-30T16:46:56.020367-08:00"}
 {"id":"bd-uqfn","title":"Work on beads-wkt: Output control parameters for MCP tool...","description":"Work on beads-wkt: Output control parameters for MCP tools (GH#622). Add brief, fields, max_description_length params to ready/list/show. When done, submit MR (not PR) to integration branch for Refinery.","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-19T22:57:10.675535-08:00","updated_at":"2025-12-20T00:49:51.929271-08:00","closed_at":"2025-12-19T23:28:25.362931-08:00"}
 {"id":"bd-usro","title":"Rename 'template instantiate' to 'mol bond'","description":"Rename the template instantiation command to match molecule metaphor.\n\nCurrent: bd template instantiate \u003cid\u003e --var key=value\nTarget:  bd mol bond \u003cid\u003e --var key=value\n\nChanges needed:\n- Add 'mol' command group (or extend existing)\n- Add 'bond' subcommand that wraps template instantiate logic\n- Keep 'template instantiate' as deprecated alias for backward compat\n- Update help text and docs to use molecule terminology\n\nThe 'bond' verb captures:\n1. Chemistry metaphor (molecules bond to form structures)\n2. Dependency linking (child issues bonded in a DAG)\n3. Short and active\n\nSee also: molecule execution model in Gas Town","status":"closed","priority":1,"issue_type":"feature","created_at":"2025-12-20T16:56:37.582795-08:00","updated_at":"2025-12-20T23:22:43.567337-08:00","closed_at":"2025-12-20T23:22:43.567337-08:00"}
 {"id":"bd-uu8p","title":"Routing bypassed in daemon mode","description":"## Bug\n\nPrefix-based routing (routes.jsonl) only works in direct mode. When the daemon is running, it bypasses routing logic because:\n\n1. Daemon mode resolves IDs via RPC (`daemonClient.ResolveID`)\n2. Daemon uses its own store, which only knows about local beads\n3. The routing logic in `resolveAndGetIssueWithRouting` is only called in direct mode\n\n## Reproduction\n\n```bash\n# With daemon running:\ncd ~/gt\nbd show gt-1py3y  # Fails - daemon can't find it\n\n# With daemon bypassed:\nbd --no-daemon show gt-1py3y  # Works - uses routing\n```\n\n## Fix Options\n\n### Option A: Client-side routing detection (Recommended)\nBefore calling daemon RPC, check if the ID prefix matches a route to a different beads dir. If so, use direct mode with routing for that ID.\n\n```go\n// In show.go, before daemon mode:\nif daemonClient != nil \u0026\u0026 needsRouting(id) {\n    // Fall back to direct mode for this ID\n    result, err := resolveAndGetIssueWithRouting(ctx, store, id)\n    ...\n}\n```\n\n### Option B: Daemon-side routing\nAdd routing support to the daemon RPC server. More complex - daemon would need to:\n- Load routes.jsonl on startup\n- Open connections to multiple databases\n- Route requests based on ID prefix\n\n### Option C: Hybrid\nDaemon returns \"not found + prefix hint\", client retries with routing.\n\n## Recommendation\n\nOption A is simplest. The client already has routing logic; just use it when we detect a routed prefix.","status":"closed","priority":1,"issue_type":"bug","created_at":"2025-12-26T14:52:00.452285-08:00","updated_at":"2025-12-26T14:54:51.572289-08:00","closed_at":"2025-12-26T14:54:51.572289-08:00"}