User blog comment:TheWarrior29/What killed the men on the boat?/@comment-6493791-20140205050405

I believe they planned on shooting a scene where a Velociraptor is seen jumping off the ship in San Diego, but it either wasn't shot or the scene was never released. I assume that's what was intended to have done it, considering the Rex couldn't fit it's head into the main control bridge, kill Thompson and not destroy anything.