But since you think messing with the ckt breaker made it work a couple of time, it would be a good idea to first check for voltage at on the wire connections at the motor (while depressing the flap switch) before going to all the trouble to remove the flap motor.... it might just be a failing ckt breaker.
Opinions, information and comments are my own unless stated otherwise. They do not necessarily represent the direction/opinions of my employer.
Van's Aircraft Engineering Prototype Shop Manager
RV-6A (aka "Junkyard Special ")