“They may call pass interference on the Ravens. The fans are booing now, but they’re going to be clapping real soon. I hope.”
I took his comment not as being biased towards San Diego, but towards himself. He clearly predicted that the call would go against the Ravens the instant it happened, the "I hope" was said in terms of "I hope the officials make me look like I know what I was talking about."

....but Dan seemed to shut up when Jacoby Jones was tackled well out of bounds as well as some other obvious homer comments.
No he didn't!! On the first hit, by the Ravens on the Chargers, I thought it was clearly out-of-bounds and should have been called. Fouts said so as well.

On the second play, when the Chargers hit Jones-out-of-bounds, he made the "soccer field" statement and commented that the officials were letting the out-of-bounds hits by both teams go un-flagged.