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@Storm Bringer: Normal ships have safeguards on them to prevent this. The induction engines power down slowly as gravity shift back in place (even if destroyed it's set up so the gravity field buffers the deceleration). This being an experimental design in which a kind of miniature black hole is used evidently lacks the security feature...or at least it was disabled or didn't quite work as expected at such incredible G-forces. Evidently the designers didn't expect sabotage or such major emergencies and the implementation on your ship was a rush job.
Also remember most of the crew is in escape pods or sitting elsewhere strapped in, they'd suffer less actual damage. Don't expect too many deaths, but expect a few. Your damage came from less then optimal positions, running around etc...
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yes the fail saves eventually seem to have kicked in due to Sterns action (or something else...to be frank not all gravity disappeared, but a good chunk did). Enough to prevent a crushing death, but not fast enough to prevent unconsciousness