Fix the patching for Newtonsoft.Json

[jasonleenaylor]

• The previous commit on this was done from an incomplete understanding of how the patch harvesting interacted with the base contents

Summary

CI-ready checklist

• Commit messages follow .github/commit-guidelines.md (subject ≤ 72 chars, no trailing punctuation; if body present, blank line then ≤ 80-char lines).
• No whitespace warnings locally:

  git fetch origin
  git log --check --pretty=format:"---% h% s" origin/<base>..
  git diff --check --cached

• Builds/tests pass locally (or I've run the CI-style build via Bash script or MSBuild).
• For any Src/** folders touched, corresponding AGENTS.md files are updated or explicitly confirmed still accurate.

Notes for reviewers (optional)

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This change is