- The Chantry protected the early mages. The Inquisition was hunting them down, the Chantry brought it to heel, and the mages were mostly kept around the chantries, keeping fires alive and such, until they got bored and fed up with it, locked themselves in a cathedral, and negotiated for the creation of the Circle. It's the Seekers not doing their job that had the Templars go out of control, no fault on the Divine or the Mothers.
-The Chantry saved the elves. Odd, no? The Dalish were at war with Orlais, they were winning, Chantry did not call an Exalted March until they themselves were threatened. (I'm not really blaming the Dalish, I would also get pissed if I wanted a Theocracy and another religion was sending missionaries into my land.) Then the Chantry forced other nations to make room for the elves. The Chantry supports the alienage elves, it's the nobles and commoners and the elves themselves that keep the alienages as bad as they are.
-Exalted Marches were justified. The Dalish were a threat, the rise of another possible Imperium was threatening (would be fewer blood mages if Chantry succeeded), and the Qunari were a threat. Doing an Exalted March and merely contemplating one are two different things, so I'm not talking about the dwarves. The dalish were given that land by Andraste's sons, not Andraste herself. The removing of the verses about Shartan was stupid, though.
-The dwarves kill an Andrastian dwarf, the Dalish only tolerate Creator believers among the clans, and the only time Andrastianism was forced on a population was by the civil leaders. Official members of the Chantry just seem to go around preaching and be given a hard time because of it, then Templars are sent in afterwards.
-As for being sexist, as I don't know the theology behind only having females be Divines (maybe due to Andraste being female, maybe Andraste only ordained women in the Chant, who knows?) I have no real comment on it, but calling it sexist is jumping to conclusions.