-People have been voicing a take down of the Chantry since Origins. People have been voicing a take down of the Dalish since Origins. People have been voicing a take down of the Qunari since Origins. People like being hardcore and extremist in their fantasy views. Why? Because it is fantasy and they can. This is nothing new or shocking. I advocate genocide against the darkspawn, whether they are intelligent or not.
-The Chantry has lost some if not most of its Templars, not all. It has lost control of the Circle, but doesn't mean that all mages have forsaken it. It stood before the Circle, it won't fall because it lost it. It lost its army, but hasn't lost its religious authority. They can still rally armies from all the Andrastian nations with a call for an Exalted March. However, if BW chooses to have the Chantry fall, nothing can be done about it, so whatever. But, I'd expect chaos and other people trying to set up new Chantries to replace the one that fell or whatever.
-Still, it's nice that you aren't forced to support the Chantry, but I'm glad to see we can play a more intense role with the Chantry.