No, exporting your profile will not stop your controller or PGP from working. Try starting PGP as Administrator.
Don't do anything as yet. Let me check out your profile and I'll get back to you.
OK, what I'm seeing in your profile is the three shift modes blue, red and green. Its all set as a tap to fire first command and hold to fire the shift mode, so far its looking good but I don't see whats the problem you're having. BTW are you using an X360 device? I also see you have left mouse as tilted over at 5%. Is that the right thing you're doing? I also noticed that shift mode red and green have no commands to each triggers. Did you set it up that way?