v0.6.1 - Documentation alignment and fixes

- Documentation alignment: 17 fixes across all docs
- Updated BOOTSTRAP.md for auto-injection vs manual workflow
- Added HTTP endpoints section to ARCHITECTURE.md
- Added missing tool tables (Reminders, Knowledge Graph, Code Indexing, GitLab Spider, Analytics)
- Documented unified context_events table migration
- Updated tool count from 25+ to 45+
- Various doc fixes for Python version, memory age format, SKIP_BOOTSTRAP env var

See v0.6.0 for the main feature release.