The current way the super theme works is a bit, er... Odd. The way it loops back to the very beginning sets me off so I have a few suggestions:
#1: Set a loop point for the song so that way instead of looping to the beginning it loops to the start of the melody, giving it a better flow.
#2: If #1 isn't currently possible then have a short jingle play and have the main level music fade back in.
I hope this opens up some ideas! Stay awesome Jon!
Also having an option to played a speed up version of the normal song would make it better if it ever gets grading.