git revert not working in 13.1.3 community edition

Hi-
  Not sure if it was related to 13.1.3 upgrade I did or not but my Changelist has many files that I did not make changes to. The diff to its latest version in git repository finds no difference and revert leaves the file in the changelist. Now of course the git was working with my previous versions and revert function too. Should I need to run something to clean this up? I assumed how a file ends up in changelist it should still allow me to revert it.

Help!

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Appears the change in file permission caused these files to appear in the change list and was not reverting in git.

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