With regard to the witches (and I have yet to watch ep4) I believe the show will have it that the Jedi killed them. Otherwise why does Jedi Tommen kill himself when Mae offers him poison. "We thought we were doing the right thing."

The shots also don't show what happened. They just show one of the girls looking through a grate or window and hearing the witches cry out or something. Kind of a giveaway that something other than what is assumed occurred....but the show doesn't show you what so it can come back later and explain.