Reducing `tool.ruff.lint.per-file-ignores`.

We are looking to reduce the number of rules ignored in `tool.ruff.lint.per-file-ignores` by delinting the codebase. This is a great opportunity for new contributors to get involved!

**Guidelines:**
- We welcome delinting of one rule per file, or keeping changes as small as possible per pull request, as it makes it easier for reviewers to check the changes.
- If your PR addresses multiple rules or files, reviewers might consider it a large change and suggest splitting it into multiple PRs.
- When modifying runtime codebases, be careful not to break backward compatibility. For example, when delinting `E722` 'bare-except', specifying the type of exception to catch may result in different behavior before and after the change.
- If you want to delint without changing the implementation, use the minimal `# noqa: RULE` comments.