The indenting issues is probably from files not having consistent (tabs or spaces) indenting, not to consistent levels. And without a specific config setting that, it may just be getting confused as part of doing other changes...

Seeing as it's not doing weird things on most of the files in the repo, we can probably just fix that by hand one time and should be good going forward.

Like I say, if we can decide whether we actually want tabs or spaces, getting that fixed should be easier.