I had no issue with what he said, he was speaking on the perception of the public that the championships were tainted, and will forever be, whether we believe that or not.
As fans who know what spygate actually was, we have 0 reason to believe anything is tainted, but ignorant media folk and fans of teams we've thrashed for the past decade will cling to it as an excuse for their inferior organization.
Harbaugh is not an idiot, and he is a far better coach than most others in the NFL, and he has been a pretty classy and standup guy for the most part, even in his losses. He has also done nothing but respect BB in the past, he shouldn't have had to apologize for what he said, it is just another case of the media twisting words once again, they changed the meaning of spygate, they put words in Harbaughs mouth, this is nothing new, they do it all the time. Look at Osi right now, Osi states that he isn't being a greedy pig, yet every articles title is written in a way to insinuate that the Giant's FO called him a greedy pig for not accepting an offer worth half of what an inferior player (Kiwanuka) is making.
This is a non story that has been twisted into something by the attention whoring media.