I exported a profile with auto configure included with extra of those auto configure added by myself. When I deleted the profile and imported the one that I added with extra I had, those extra got eliminated and only the default fast, medium, high were loaded but no ultra or extra or experimental were loaded
My guess would be that there is a problem with the auto configure sections that you manually added. Try copy/pasting one of the already existing auto configure sections, and only change the name. Then see if that shows up. If it does, you just need to compare and see what was wrong with the other sections you added.