Is there anything with the hair tie removal?  Kyoko removes it when she gives herself up, Homura removes it (along with her glasses) when she changes her mood, and Madoka removes her's when she leaves.

Kyubei, in episode 8, says that it was the second time he was killed by Homura.  In episode 10, I only recall her killing Kyubei being shown once.  Of course, wee don't know whether Homura killed him before on the same timeline, but otherwise, is there any suggestion that he has some ability to see through the various timelines?

Is the guy living with Madoka's family (not her brother) the father?

Does Homura's voice change at the very end? (I thought it did, but I may need to check)

Maybe I need to rewatch, but what did Madoka do to somehow cause her mum not to give birth to a daughter again?