Continuity mistake: When Vargas beams up to the Liberator just ahead of Blake, Gan & Vila, he challenges them when they arrive from the other side of the room - by stepping out of the teleport bay. But they're standing in the teleport bay, and Liberator has only one. So exactly where is Vargas standing?
Plot hole: Travis, dressed up as the supposedly disabled dissident Shivan, fools Blake and the rebellion leaders far too easily. His head bandages completely cover his mouth (how did he eat?) and his glued-on glass eye is so obviously fake it's laughable. If we noticed, why didn't they?
Continuity mistake: Just before Scorpio crashes, Avon grabs Orac and teleports to safety. When they're still aboard the ship, Orac has several wires hanging loose from underneath. When they materialize on the planet, however, all the loose wires are magically repaired and no longer hanging.
Plot hole: When the Liberator returns to the planet, Travis remarks that their orbit is too far away to use their matter transmitter. Since Travis had only found out that they even HAD a matter transmitter (which the Federation hasn't managed to develop yet) when he spoke to a technician just before that, how would he know what the range was?
Visible crew/equipment: That main console! The uppermost of the flight consoles of Liberator isn't fixed down in this episode, and wobbles almost every time it is touched, and not just small wobbles. Watch for the 10 seconds or so after Jenna says "Eventually I might just be able to get her to start and stop", and you'll wonder how she didn't knock the entire prop off whatever it's sitting on and onto the floor.