The sports news out here in the Bay area have assumed Harbaugh is gone after this season for quite a while. It's talked about casually as if it is fait accompli with the occasional speculation of where he will go. Michigan comes up, but curiously, the Raiders comes up more often. The thing about players not liking him is rumored, but I guess the rift between him and the GM is considered fact.
Kind of reminds me of when Bill Walsh coached the niners and was always referred to as a genius. When Walsh retired, one of the high profile players commented that he felt like he had 200lbs of genius taken off his shoulders.