Plot hole: In order to build up suspense, Virgil and Brains stand on the Crab Logger as its dangerous fuel is pumped out, despite the fact that it is hanging on the edge of a precipice. In fact they could have left as soon as they had plumbed in the pipes to empty the fuel tanks - the whole procedure is controlled by Scott in Thunderbird 1 and they make absolutely no contribution to the operation at all. They do not need to disconnect the pipes; they are left behind and dropped from Thunderbird 1 as planned. They just stand there chatting about how much danger they are in until jumping clear at the very last second. Silly buggers.
Continuity mistake: Interior shots of the flying sub sows the sub rocking violently but exterior shots show the sub lying still on the sea floor.
Emergency Marineville - S1-E11
Continuity mistake: When the second group of Spearhead jets take off from Marineville there are only two jets, but in the next shot you can see three jets, and in the next shot there are two again.