Fix pre-commit framework inconsistencies with GA

[unode]

Lints a few cases that were missed before and configures exceptions.

• black was still trying to lint .py files in unittest snapshots
  • .mypy and other files/folders don't need to be excluded since pre-commit only looks at files tracked by git.
• pytest was failing to find modules - pre-commit defaults to running in an independent venv. Using system disables that behavior and inherits the environment.
• docformatter use newer version and do --in-place changes.
  • docformatter is still a little annoying to use. When running locally it automatically fixes things and git tells us what changes but in a GitHub Action the output only tells which file failed not what caused it.