After a homicidal Avon failed to find Vila aboard the shuttle, footage in which Vila emerged in tears was cut from the final version of this episode. (Only a few seconds of it remains.) The emotional scene was deemed "too intense" for the younger viewers. See more...
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Deliberate "mistake": In the escape scene near the end, an explosive charge that went off too soon knocked Paul Darrow over - and briefly out of the shot. Because he was able to get back up and keep running, the accident was left in, though he's said it was fortunate there was no microphone on him at the time, as he uttered a few words that were "definitely not rated PG."
Plot hole: The IMIPAK weapon marks its victims and then kills them with a secondary device. But it's inconsistently selective. When Servalan kills the guard with it, Blake and co., marked and standing nearby, are unharmed. But Rashel later warns Travis not to push the button because he and Servalan are marked and would die too.
Continuity: When the crew teleports up at the end, the shirtless Vila arrives in a completely different position relative to the others. On the surface, he's standing in a ring with the rest of them. When they materialize, he's hunched over and is now in the middle of their circle with the others around him.
Plot hole: Whomever designed the base's defenses was an idiot. The electrified matting outside extends for a distance exactly equal to the distance a man can run in the 8 seconds it takes to self-repair; any sensible defense designer would have extended it to a greater distance than it was possible for anyone shooting it to run in that time. Inside the base, we see the ceilings of many passageways (well, actually the same section of passage over and over with different lighting), and the only passage with overhead pipes/monkey bars is the one with the electrified floor. Very convenient.