If it's just little tabs (lawyer tabs, I think they're unofficially called) then I can't see any issue with grinding them down. Other than the obvious, they won't stop a QR skewer dropping out if not properly tightened. Not that that would be relevant for your build.
If the raised 'ridge' goes all the way around the dropout then it might be a different issue though. Doesn't look like it, but I can't quite tell from the photo.
If it's just little tabs (lawyer tabs, I think they're unofficially called) then I can't see any issue with grinding them down. Other than the obvious, they won't stop a QR skewer dropping out if not properly tightened. Not that that would be relevant for your build.
If the raised 'ridge' goes all the way around the dropout then it might be a different issue though. Doesn't look like it, but I can't quite tell from the photo.