Pixhawk 2.4.8 (clone) and problems with copter firmware above 3.2.1

It definitely looks like a PH and the messages indicate it is a PH so my assumption is wrong.

I have seen a similar throttle problem in another thread, but I can’t find it at present.
If you turn on “pre-arm logging” in parameters you can get a log file to post which might help in finding out whats going on.

Sorry I can’t be more definitive.