Plot hole: During the warp-speed chase, the Vengeance literally blasts the Enterprise to pieces, and dozens if not scores of Enterprise crew members are killed and injured in the carnage. The medical crew, including Chief Medical Officer McCoy, should have been working feverishly on the wounded and dying for hours, at least. Instead, as Kirk asks Khan for help, the Sickbay is practically deserted, and McCoy is almost idly conducting blood experiments on a dead tribble. There's no sense of a catastrophic medical emergency whatsoever. It's as though the Sickbay sequence was shot for a different script in which there was no emergency, and then lazily inserted into a rewritten script.
Star Trek Into Darkness (2013)
1 plot hole - chronological order
Directed by: J.J. Abrams
Starring: Benedict Cumberbatch, Simon Pegg, Chris Pine, Karl Urban, Zoe Saldana, Anton Yelchin, Alice Eve, John Cho, Zachary Quinto
Factual error: At one point Khan threatens to target the Enterprise's life support systems which are located behind her "aft nacelle". The Enterprise doesn't have an aft nacelle; as the many exterior shots show, it has a port nacelle and a starboard nacelle. Khan a) is familiar enough with Starfleet ships to know this basic fact about the Enterprise, and b) can see its nacelles for himself on his own viewscreen while he's delivering this line. There is no "nacelle" housing the impulse engines. They are enclosed by the hull of the saucer section. (01:37:25)
Bones: Jim, you're not actually going after this guy, are you?
James T. Kirk: I have no idea what I'm supposed to do, I only know what I can do.
Trivia: The library that is bombed is called the "Kelvin Memorial Archive," a reference to the destruction of the U.S.S. Kelvin seen in the first film. (00:18:05)
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Chosen answer: McCoy has no real idea how much blood he's going to need to bring Kirk back - given the catastrophic radiation damage to his body, there's every possibility that he might need multiple transfusions over a period of time, which would be much easier if Khan was still alive. Plus there's also the issue that killing Khan could well involve spilling some of the blood that McCoy so desperately needs. Bringing Khan in alive is the best way to maximise their chances.
Tailkinker ★