VidjaGamez summed up my thoughts rather well, with the exception being at the end there. I'm am not at all inclined to believe
Kalani is still alive, however,
Scratch may have collected his body just to be a bastard, thinking she can return it to
Michael the way John's body was returned to her.
But yes, I agree with VidjaGamez and most of what Nik is theorizing; Kalani may have contacted
the Mallers when arriving at Michael's Tower, then realized that he could possibly use his new allies to take out the Mallers completely. I am assuming he fired the shot that jump started the inevitable war.
My biggest questions center around
Hannah and her current state.