Added comprehensive CLI reference documentation for the three molecule
lifecycle commands:
- bd mol bond: Instantiate proto into Mol (durable) or Wisp (ephemeral)
- bd mol squash: Complete molecule and generate digest
- bd mol burn: Abandon molecule without digest
Includes argument tables, behavior descriptions, examples, and a
lifecycle diagram showing the steam engine metaphor mapping.
Closes: gt-odvf
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- Add Pluggable Molecules section to architecture.md explaining
directory-based plugins for extensible workflows
- Create molecules.md with full design for code-review molecule
- Document plugin CLAUDE.md format with frontmatter
- Describe phased execution (discovery/structural/tactical/synthesis)
- Include implementation plan and usage examples
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
