I do think that Dan is focusing too much on the TV feed for his calls in general. There were two instances in one of the White Sox games (I forget which) where he sounded like he was fooled on deep fly balls; in one case, it was a catch where it seemed like he thought the ball was over the fielder's head; in the other, he sounded like he was about to go into a home run call on a ball that hit at the base of the wall. In both cases, the camera angle being shown seemed like it contributed to an optical illusion that I suspect wouldn't have been apparent when actually watching the field.
To your specific point, though, while I agree on the strike zone thing, Dan did make it a point to say at one point (also in the past few days) that the automated zone is in 2-D, while of course the actual zone is in 3-D, so pitches like curveballs could nip the zone while appearing to be outside to the automated zone.