docs: sync markdown with implementation

[longlho]

Summary

• sync Markdown docs with current source graph, schema, release, and package implementation
• update npm package READMEs for unscoped packages and Node/native API details
• update false-positive repro synopsis and benchmark docs with current fixture coverage

Validation

• git diff --check
• checked stale public-name and benchmark strings with rg
• parsed JSON and workflow YAML
• checked local Markdown links across 14 Markdown files
• bazel test //crates/codescythe:codescythe_schema_test //tests/fixtures/false-positive-repros:false_positive_repros