Couple additional points in this thread.
In the ninth inning on friday night, Girardi pinch hit Thames for Johnson leading off against Fuentes. I understand that Joe wanted Thames, who hits lefties well, to face a lefty, but I still don't like the move. In that situation, down two runs, a walk is as good as a home run, and few players on the team are better at getting on base than Johnson. I'd prefer that over the platoon advantage.
The second point comes from today's game. Swisher bunted on his own in the fourth inning with nobody out, to move two runners up. I think it was a terrible decision, but I won't discuss that, because, according to Swisher, he did it on his own. However, what I will say is that I disagree with Joe's policy of allowing hitters to sac bunt on their own. In my opinion, a hitter should not be allowed to giveaway an out on their own. Those decisions are for the manager to make. I understand that Joe isn't the only manager to have this policy, and I'm sure it's quite common, but I still disagree with it.