Just been in the AIM-9 instant action dogfight. Set my program to auto, turned the switch to On and not Bypass yet not a single flare was fired during the dogfight.
https://drive.google.com/open?id=1OmIS9Ze5ConXO_Ptnv0us1CMkX4HqCRt
That's the tacview file as the replayfile is bugged for me.