I apologize to the ship guy's in advance if I have some of the terms wrong, I've only built a few ship models.
O.K. looking further at more pictures I discovered the entire wall (bulkhead) should be flat not rounded like the model (part H-4), in the first film the wall is at a slight angle, the door is a double door with rounded top.
The stairs from the mizzen need to be angled out at the bottom.
The skylight on the mizzen deck should be angled like a roof not flat, in the first film it was across the deck (turned 90 degrees) also the ships bell is missing, the holder (insert name here) is correct for the first film, 2&3 had a different design.
The small hatches for the sweeps are missing on the sides, these are between the lower gun ports.
The stairs (ladder) going down just aft of the fore deck has a wood railing and goes down right to left.
The stairs (ladder) just in front of the main mast should go down left to right and only has 2 metal posts with rope going down.
There are several boats across the deck behind the fore deck.
Metal posts with rope should be on top of all the posts on the railing.
First film had 4 torches, 2 on the fore deck and 2 amidships, all films had lamps hanging under the lip of the mizzen over the windows on the main deck (that wall that needs replacing)
EDIT Omit parts I-22, on first film version the lines for the gun ports go into holes in the hull not a post, they are however on the ship used in 2&3.
That's the main things I have noticed so far.
I'm not sure why they did the wall and stairs wrong, they are the same in all 3 films.