I have used a couple CoPilots in the past. Have one I am planning to use in a current build. The CoPilot is pretty much just a Missile Works RRC2L with a 9V battery housing attached. I am not home this week, but can check it out when I get home this weekend.
How did you wire the LiPO? Did you remove the 9V holder? Attach some photos so we can see how you did it.
Looks like you have it hooked up to an Eggtimer WiFi switch. Have you tested the CoPilot with the LiPo connected to it directly in order to rule out the WiFi switch as a point of failure? Also, the CoPilot works with the Missile Works LCD controller, do you have one of those on hand? It would give a you a lot of info about what is going on.