When Hodgins takes the handicap machine up to the upper part, he doesn't use the card to get in.
When reviewing the image of the reconstruction, Bones says "if he hadn't been prone". He wasn't; he was supine [which he must have been, given his injuries].
Both the male and female singing groups are supposed to be "a cappella" groups, but each time they're down rehearsing, there's an obvious instrumental track behind them.
Correction: There are two possible explanations for this. First, a cappella groups have what are called vocal percussionists. A person that makes sounds that sound like instruments. Second, it could be what's called a click track that they are practicing with to make sure they are singing to the correct tempo.
Obvious playback when the female group is singing. At one point the leader is heard to sing a long note but her mouth is shut.