Fix broken documentation links in guides (#13602)

* Initial plan

* Fix broken documentation links in guides

- Update security link in ephemerals.md to point to /reference/tokens/
- Update threat-detection link in researchplanassign.md to /reference/threat-detection/
- Update custom-safe-outputs link in researchplanassign.md to /reference/custom-safe-outputs/

Co-authored-by: pelikhan <4175913+pelikhan@users.noreply.github.com>

---------

Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com>
Co-authored-by: pelikhan <4175913+pelikhan@users.noreply.github.com>

Author: Copilot

docs/src/content/docs/guides/ephemerals.md

@@ -271,5 +271,5 @@ This configuration ensures:
 - [Triggers Reference](/gh-aw/reference/triggers/) - Complete trigger configuration including `stop-after`
 - [Safe Outputs Reference](/gh-aw/reference/safe-outputs/) - All safe output types and expiration options
 - [SideRepoOps Guide](/gh-aw/guides/siderepoops/) - Complete setup for side repository operations
-- [Security Best Practices](/gh-aw/guides/security/) - Authentication and security considerations
+- [Security Best Practices](/gh-aw/reference/tokens/) - Authentication and security considerations
 - [Orchestration](/gh-aw/guides/orchestration/) - Orchestrating multi-workflow initiatives

docs/src/content/docs/guides/researchplanassign.md

@@ -92,8 +92,8 @@ The three-phase approach takes longer than direct execution and requires develop
 ## Related Strategies
 
 - **[Orchestration](/gh-aw/guides/orchestration/)**: Coordinate multiple ResearchPlanAssign cycles toward a shared goal
-- **[Threat Detection](/gh-aw/guides/threat-detection/)**: Continuous monitoring without planning phase
-- **[Custom Safe Outputs](/gh-aw/guides/custom-safe-outputs/)**: Create custom actions for plan phase
+- **[Threat Detection](/gh-aw/reference/threat-detection/)**: Continuous monitoring without planning phase
+- **[Custom Safe Outputs](/gh-aw/reference/custom-safe-outputs/)**: Create custom actions for plan phase
 
 > [!NOTE]
 > The ResearchPlanAssign strategy works best when research findings vary in relevance and priority. For issues that always require immediate action, consider using direct execution workflows instead.