Thinking she was in the trunk from the moment he left the shops at 3:58a b/c there is no mention of her being in the photo of Enrique leaving the parking garage. If he had gone back to get her at the 2nd timestamp, then we'd have more footage of him/his car entering the garage like they did when they first got there.
Or...maybe, the footage of the car exiting is just that: only the car exiting and they cannot see who is in the car. The arrest warrant mentions injuries to his right arm/hand. Maybe if she was in the passenger seat, he was "fighting" w/her using his right arm while he steered w/the left?