refactor: Simplify wisp architecture - badges not separate storage

Wisps are now just issues with Wisp=true flag in the main database,
not exported to JSONL. Removes all references to .beads-wisp/ directory.

- Update docs: CLAUDE.md, CLI_REFERENCE.md, MOLECULES.md, DELETIONS.md
- Update code comments: wisp.go
- Update changelog and info.go version notes

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

docs/CLI_REFERENCE.md

@@ -351,7 +351,7 @@ Beads uses a chemistry metaphor for template-based workflows. See [MOLECULES.md]
 |-------|-------|---------|---------|
 | Solid | Proto | `.beads/` | `bd mol catalog` |
 | Liquid | Mol | `.beads/` | `bd pour` |
-| Vapor | Wisp | `.beads-wisp/` | `bd wisp create` |
+| Vapor | Wisp | `.beads/` (Wisp=true, not exported) | `bd wisp create` |
 
 ### Proto/Template Commands
 

docs/DELETIONS.md

@@ -230,11 +230,10 @@ This is intentional, not a bug. See [ARCHITECTURE.md](ARCHITECTURE.md#wisps-and-
 
 ### If You Need Wisp History
 
-Wisps exist in local git history (SQLite database commits) until garbage collected. Future enhancements may include:
+Wisps are stored in the main database with `Wisp=true` flag and are not exported to JSONL. They exist in local SQLite until garbage collected or squashed. Future enhancements may include:
 
-- Separate ephemeral repository for wisp storage
-- Explicit migration step to promote wisps to permanent storage
 - Configurable wisp retention policies
+- Automatic staleness detection based on dependency graph pressure
 
 ## Related
 

docs/MOLECULES.md

@@ -123,7 +123,7 @@ For reusable workflows, beads uses a chemistry metaphor:
 |-------|------|---------|--------|---------|
 | **Solid** | Proto | `.beads/` | Yes | Frozen template |
 | **Liquid** | Mol | `.beads/` | Yes | Active persistent work |
-| **Vapor** | Wisp | `.beads-wisp/` | No | Ephemeral operations |
+| **Vapor** | Wisp | `.beads/` (Wisp=true) | No | Ephemeral operations |
 
 ### Phase Commands