Really, really cute game... but an extremely tough one. I felt like my IQ just increased by a few points after playing this... I have always sucked at puzzle games. -.-
At first I have a problem with the idea that you need a special power just to... wait. But then I read the description and say "Oh... ugh... alright then XD"
But I think here comes a weakness of the game: later levels no longer use the wait mechanics (well... even had the wait mechanics been added again it would've been quite useless though because you had the box that you could use to... "wait")
Really would like to know the name of the character.
And then... DAMMIT I WISH I HAD RECORDED MY ATTEMPT. I WANT TO PUT THIS INTO MY UPCOMING LET'S PLAY BUT I DON'T THINK I WOULD KNOW HOW TO SOLVE THAT LAST LEVEL AGAIN IF I HAD TO DO IT ONCE MORE!
P.S.: By the way... I don't think you got the "hidden side theme" correctly. While the [main] themes are the names of episodes of the [main] original Puella Magi Madoka Magica anime, the [side] themes are the names of the (season 1) episodes of Puella Magi Madoka Magica [Side] Story: Magia Record.