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>

cmd/bd/info.go

@@ -341,7 +341,7 @@ var versionChanges = []VersionChange{
 			"NEW: Chemistry UX - bd pour, bd mol bond --wisp/--pour for phase control",
 			"NEW: Cross-project deps - external:<repo>:<id> syntax, bd ship command",
 			"BREAKING: bd repo add/remove now writes to .beads/config.yaml (not DB)",
-			"FIX: Wisp storage auto-copies issue_prefix from main database",
+			"FIX: Wisps use Wisp=true flag in main database (not exported to JSONL)",
 		},
 	},
 	{