Falcon 9 doesn't use an FTS manually triggered by an RSO. It uses an AFTS, which is controlled by the rocket itself.
My guess is it was armed for the early stages of the flight (when there was still a risk something could go seriously wrong and the rocket could start heading towards Orlandit), but it was disarmed (or just given very generous parameters) once the rocket was downrange a ways.
Based on what they said, I'm assuming that it would have been triggered at some point before it started coming down, but they were expecting that it would be destroyed before that happened.
The upper stage hit the ocean intact. That suggests the FTS was not triggered (or it was triggered and failed to destroy the stage, which would be more concerning)