I had the same. Make sure that build triggers in job configuration:

  • Build when a change is pushed to GitHub - is not checked (I had it enabled and it caused ${sha1} not to be set, which makes sense as this checkbox is for "Github plugin", not for "GitHub pull request builder plugin" and reacts for every push),
  • GitHub Pull Request Builder - is checked and reacts only for pull reqests and issue comments (webhook setup done automatically by Jenkins).

Verify also Webhook in your project settings:

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