My guess is that your Pitchfactor is OK.

It is possible that you have the MIDImap set incorrectly and you are not loading the program that you think you are.

Try renaming the saved preset, and see if:

1) When you load it with the switches it loads with the new name.

2) When you load it from MIDI it loads with the new name.

My prediction is that (1) will be yes and (2) will be no, which would confirm my MIDImap thought.

If (1) is no, either you are doing it wrong (read User Manual) or you really do have a hardware fault.