I agree that Butler's post was fine and I think that Pats players liking it was fine. Nothing much there. That said, I think Tom's comment to the post went reasonably far and in a context in which his coach is getting skewered by just about everyone, could be seen -- by Bill, Kraft and teammates -- as a tilting toward Malcolm and implicitly criticizing Bill.
There's of course enough ambiguity for that not to be the read. But this is unusual ground and an unusual step for Tom to take.
Taking a step back and considering how Bill answered DeflateGate questions ("ask Tom"), maybe this is fair game and the ground is not really that unusual in the context of Bill/Tom's public statements.
As to whether Tom's view matters and what may flow from all this, the answer is that it's hard to see anything changing. That is, assuming Bill wants to stay and that looks to be a safe assumption. But with Josh now gone, the in house heir apparent is gone, so it's hard to see Kraft doing anything in response to Tom's reaction. The more likely result is that they react and then calm down, and then meet and move forward. But at this point, and with the backdrop of Bill making a series of decisions that many think contributed mightily to losing a SB, no outcome would truly surprise me.