Where was the flight recorder, when the recording ended?
In the cockpit or the auxiliary sleeping quarters?
When the "scavengers" brought the auxiliary sleeping quarters down to a crash, the recorder was found inside.
It would make sense that the recording ended because it was in the cockpit and that the TET's effects caused it to stop recording. It would not make sense for the recorder to stop recording simply because the auxiliary quarters was separated from the cockpit. Why would it stop?
It also would not make sense that somehow the cockpit rejoined with its auxiliary compartment - because that would mean that the TET would have located the sleeping crew too.
Is this one of those anomalies in a story that slipped the minds of the director/producer?