chore: update all packages to latest compatible versions

Updated 16 packages including:
- fastmcp v2.12.4 -> v2.12.5
- pydantic v2.12.0 -> v2.12.3
- ruff v0.14.0 -> v2.14.1
- cyclopts v3.24.0 -> v4.0.0
- coverage v7.10.7 -> v7.11.0
- And 11 other packages

Author: ryderstorm