Early on in the project we ran Uncrustify across our entire-codebase before introducing the pre-commit hook. The major downside to this was that git-blame now pointed to this large commit for almost every line of our project. It became a pain to trace back changes before the mass style change. Luckily we did this fairly early in the project so that it hasn't really been a big problem.

However, because the entire code-base was cleaned up at once we now have no additional noise from Uncrustify being run on our commits. The only changes to style it will ever suggest are with your current changes you are attempting to commit since everything in the repo right now is "clean".