Add setup scripts and prepare LLM refactor backlog

[cpdata]

Summary

• add run/install_setup.sh and run/maintenance_setup.sh to provision system packages and sync Python dependencies with uv
• update README, SETUP, SOT, PLAN, RECOMMENDATIONS, and ISSUES to document the new automation scripts and upcoming LLM client refactor
• enforce atomic TODO entries via AGENTS.md, refresh TODO.md priorities, and capture the new workflow in the changelog and resume notes

Testing

• not run (documentation and scripting updates only)

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https://chatgpt.com/codex/tasks/task_b_68ee1c9ee92c83218cbbebce8b0667b8

[chatgpt-codex-connector]

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[chatgpt-codex-connector]

Parse UTC timestamps ending with “Z” in pydantic fallback

The fallback BaseModel converts datetime fields with datetime.fromisoformat. Unlike real Pydantic, datetime.fromisoformat raises ValueError for common ISO-8601 strings that use a trailing Z (e.g. 2025-01-01T12:00:00Z). When the project runs in environments without pydantic—the exact scenario this module targets—ingesting a Memory or Triplet containing a reference_time formatted with Z will now crash during construction instead of coercing to UTC. Consider normalizing Z to +00:00 (or using fromisoformat(value.replace('Z', '+00:00'))) before parsing so the compatibility layer accepts the same inputs as Pydantic.

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