Well I'm not an expert on dealing with electric powered setups, but I'll tell what I do with my little T-Rex 450; since there is nothing plugged into the Batt/Bind port on the rx, I leave a short extension plugged in there so I can get to it without a bunch of monkey business. I use that extension along with a Spektrum (three wire) switch and another regular rx pack battery, to power the rx/servos, set travels and do rx binding. This takes the ESC out of the loop and I don't have to worry about the motor spinning up or anything as well.

You may want to give the separate battery method a try for binding purposes????