The original body does indeed vanish at that point!
They wake up at the entrance of the underground city, as if they're returning from a supply run (even if they aren't). This is typically where they leave for the runs.
As for your final question, it depends on what's happening. If we're talking in terms of the body, all bodies die and remain in place unless moved until the reset button. Beyond that, we'd need to handle all forms of NPCs on a case by case scenario because of the impact on the setting.
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The original body does indeed vanish at that point!
They wake up at the entrance of the underground city, as if they're returning from a supply run (even if they aren't). This is typically where they leave for the runs.
As for your final question, it depends on what's happening. If we're talking in terms of the body, all bodies die and remain in place unless moved until the reset button. Beyond that, we'd need to handle all forms of NPCs on a case by case scenario because of the impact on the setting.