Check the sizes of the effects and ambient tpas, Scal. Depending on which type of install, there are copies both inside the data folder and the dreamworks folder. If there are tpas inside the dreamworks folder, tres ignors the tpas inside the data folder, which are probably the ones that you updated. Whichever files are larger, they're the correct ones, so replace the smaller tpa files.
Ship: Once inside the engine room, look up. You'll see a grate above your head. Jump up and try to touch it and it'll drop down. You can either drag a crate over to that area and do a crouched jump into the ductworks, or there's a wrench lying beneath the water on the engine room's floor. You can take that tool all the way back to the engine room (last valve) and give it a whack. That'll flood the engine room, then it's much easier to get into the ductworks.
Ship is meant to be spooky. If you head up the stairs beneath the bridge, you'll hear footsteps above you and if you get to the hatch just below the bridge quick enough, you'll hear the hatch close, see the hatch wheel turn, hear the footsteps running out across the deck of the ship....
Nice to hear that you're enjoying it.
btw, the chainsaw's a killer weapon. Just hit action key as you contact any dino. They pretty much die instantly. It's actually a gun, though the bullet travels downwards instead of out and has a very short distance so contact with the blade is necessary to cause damage.
Can injure or kill compies by whackin' them with sticks, rocks or even the butt of a gun. Crowbar is a good weapon, too.