I thought it was pretty fucking lame how the T-Rex was somehow locked in the ship's cargo bay the entire trip, and yet somehow it apparently got out during the trip, killed everyone on board (including the ship's pilot, who was killed inside an enclosure too small for even the T-Rex's head to enter without destroying it), and then go back into the ship's hold and closed the doors.
Granted, that was due to cuts made to the movie that removed the convenient raptor pack that stowed away on the same boat, but you'll notice they didn't bother explaining it away or even covering it up in the final cut of the film. Why? My theory is that everyone involved knew The Lost World was a pile of shit (and it was) and instead of trying to deny the obvious truth, they just decided to fan the stench as hard as they could, having wasted so much time and money on it up until that point.