It's not just Bachmann who hates Muslims. Its the entire Washington DC establishment (and most of middle America) that hates Muslims. The hatred of Muslims (and Arabs) has been indoctrinated into the minds of mainstream America ever since the end of WWII.
If there is any discomfort re. Ron Paul's pointedly accurate statement, it would is that the little secret that nobody dared to discuss is now in the open. I don't particularly like Ron Paul's platform, but he is honest and straightforward, which is far more than can be said about *any* of the others, barring Gary Johnson.