The thread made me think of the "Chocolate Rain" video, where he leans away from the mic to stop the breathing being recorded.
I agree that with a stripped back track the breathing can be an element all it's own. Where as with overdrive/distortion and a band it can get lost anyway, or become a 'noise' in the track.
I think a lot is feel as has been said, if it doesn't take away from the track, it can probably be left in.
The song "The Kill" by 30 Seconds to Mars has the breathing left in both inhale and exhale, and I feel it adds something to the performance.
I'm sure for every example of one there will be a counterpoint of the other.