docs: update guide content, examples, tools, and reference files

- guide/ultimate-guide.md — content updates
- guide/workflows/README.md, guide/README.md — navigation improvements
- guide/diagrams/ — diagram updates (context/sessions, config, MCP ecosystem)
- guide/third-party-tools.md — additions
- examples/README.md, hooks/README.md, scripts/README.md — examples updates
- examples/skills/pr-triage/SKILL.md — expanded skill
- machine-readable/reference.yaml — reference sync
- tools/audit-prompt.md, tools/onboarding-prompt.md — tooling updates
- docs/for-cto.md, docs/for-tech-leads.md, docs/resource-evaluations/README.md — doc updates
- .gitignore — gitignore update

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>

examples/hooks/README.md

@@ -41,6 +41,9 @@ Hooks are scripts that execute automatically on Claude Code events. They enable
 | [pre-commit-secrets.sh](./bash/pre-commit-secrets.sh) | Git hook | Block secrets from entering commits | Bash |
 | [pre-commit-evaluator.sh](./bash/pre-commit-evaluator.sh) | Git hook | LLM-as-a-Judge pre-commit validation | Bash |
 | [notification.sh](./bash/notification.sh) | Notification | Contextual macOS sound alerts | Bash (macOS) |
+| [auto-rename-session.sh](./bash/auto-rename-session.sh) | SessionEnd | AI-powered session title generation via Haiku | Bash |
+| [security-gate.sh](./bash/security-gate.sh) | PreToolUse | Detect vulnerable code patterns before writing to source files | Bash |
+| [velocity-governor.sh](./bash/velocity-governor.sh) | PreToolUse | Rate-limit tool calls to avoid API throttling | Bash |
 | [security-check.ps1](./powershell/security-check.ps1) | PreToolUse | Block secrets in commands | PowerShell |
 | [auto-format.ps1](./powershell/auto-format.ps1) | PostToolUse | Auto-format after edits | PowerShell |