From you postings I'm not sure if you are always having satellite issues after rebooting or just communication issues with QGC.
After you reboot you are saying you don't get a solid light on the satellite?
If you turn off your Transmitter off does the light go out?
If you don't get a solid light on the satellite and it doesn't respond to the transmitter going on and off you either don't have 3.3 volts or maybe the AQ is pulling the signal line low.
When this occurs read the voltage on the signal and power lines of the satellite and see what you get.