Plot hole: If they assembled the wet bike on the submarine, they wouldn't be able to get it off as it would be too big to fit through the hatch.
Plot hole: When Bond's Lotus is being attacked while it's traveling underwater, it develops a few small leaks, which spray a thin stream of water into the car. When the Lotus drives out onto the beach, Bond rolls down the window and drops a big fish out of the car. How did that get in there? If there was a hole in the car the size of that fish, it would have flooded the driver's compartment and sunk the car.
Plot hole: When the submarine with Bond aboard sees the Liparus it is 6,200 yards away, and over to the side. How can it then suddenly be behind the submarine?
Plot hole: Stromberg One is on 48 degrees West, Stromberg Two is at 22 degrees West, and the Liparus further east. That means that Stromberg Two has sailed at least 28 degrees since its departure from the Liparus. That is more than 2.500 km and would take a submarine several days. How did it get that far in a few hours?
Plot hole: Right before Bond hops on the moving camera globe to go blow up the barrier to the control room on the Liparus, they show a shot of one of the firing slots on the control room open and the guards firing at Bond. Through the port, you can see that Bond is on the catwalk above the walkway to the barrier. But when Bond climbs down onto the camera globe, and when he's sliding back on the track, nobody fires a shot, even though he's now in a direct line of fire with those firing ports and the guards have a totally clear shot at him.
Suggested correction: Maybe the ice bucket was always a part of the escape pod.
Ice that doesn't melt at room temperature - now there's an achievement.