Who knows maybe Mothervine is messing Emma up in one way or another and afterwords she'll be back to her old self, and Alex is still inverted and all scarred up so what I'm hoping from Bunn is that he fixes both of those things for Alex...which could easily explain why he's one of the baddies...that or Bunn is trying to put as much distance between Alex and Lorna as he can while he has control of both...