I think it was a mistake, but we won't know that until next year. For now, I think that Johan Santana has pitched his way into the discussion with 14 consecutive quality starts down the stretch.
I think it's close:
Innings (226.2, 227, 234.1), complete games (3, 2, 3) and shutouts (1, 1, 2) are effectively indistinguishable.
I dunno. The problem here is that the guy with the most wins has the highest ERA. Webb shouldn't be in the discussion, based on ERA, but 22 wins is a lot of wins. I suppose I'd vote Webb, Lincecum, then Santana, but I wouldn't argue with any arrangement of them.