When I did the custom OS install, I tried restoring the saved factory OS(full reflash). Then I connected the handheld tuner that came with the Radix kit. Seems that it no longer recognizes the PCM(I get an error message stating that I need to contact Mag to update the tuner).

I assume then that that PCM has not been restored exactly to it's original state. There must be some check that does not agree with what the dedicated handheld has stored. Is this correct?