I don't think you're following me. It's all about the way umps are trained to call balls/strikes. It's how they read the pitch. I'm sure George Anderson or Bumstead could explain it much better than I could, but the umps do indeed use the final location of the catchers mitt as a guide. Read up on how umps read pitch locations and the track of a pitch...it's pretty enlightening.
Yes, the ump had a very poor night back there. But Mesoraco also did a very poor job of receiving as well for most of the game too. And that certainly led to some calls not going our way too. He needs a LOT of work cleaning up his technique back there. Its not just pitch calling that the pitchers probably don't feel comfortable with in regards to Devin (I bet pitch-calling is VERY low on their list in fact).