Thanks @kschwarts for linking to that SO fix. Worked for me too. I did find that there is an overall kill switch to disable the Git plugin from changing any colours in the project explorer: Disabling the “Git Resources” setting on General>Appearance>Label Decorations seems to do the trick, thought it also seems to disable all other annotations (icons etc.). I personally don’t ever use any of those annotations (too small/too cluttered) so that setting is a win-win for me.