Plot hole: When Jamie and Cully go on the offensive, Jamie lures a quark away from a drilling site into a narrow valley, then Cully drops a boulder onto it. Yet when we see the crushed quark, it is next to a drill, on flat land.
Plot hole: Despite being asked to memorise all the locations and war zone commanders, Zoe's photographic memory lets her down: her first words to the Mexican leader are 'Who are you?'.
Answer: It was never destroyed on-screen; it was intact at the end of the TV movie, and destroyed by the start of the 2005 series. It was destroyed in the novel "The Ancestor Cell," but in a completely different manner to what happened in the series.
DaveJB