uuugh i didnt want to get involved in this topic, but seems i have to.
The Grey Wardens are Indeed a Shady organization, but they cannot act in any true shady way because of their Neutrality Clause, the Tevinter Imperium as a whole arent all Bastards, yes theres slavery, yes the mages rule, but not everyone from Tevinter are Bastards. Magic In its Essential, state is not evil. its people that make magic be seen in a pale light, Blood Magic being used to summon demons by sacrificing people: Bad. a Blood Mage using Blood Magic as a means to save others: Good. as Put by Wynne and the Warden. "your only an Abomination if you forget who you are".
Mages taking care of themselves, is not necessarily a Bad thing, but i would not suggest it as a good thing either. because of the nature of the fade and the demons waiting for mages to slip up so they can enter this world i would not give the mages themselves the benefit of the doubt. open the Doors to the circles, let them wander around, but keep an eye on them so they dont do terrible things, come up with some new rules.
I know that sounds very much like a guilded cage but with the fact that there Are Demons in the Fade, you cannot let mages themselves be free to do as they please, but you CAN treat them as people. the Tranquil are still mages, still people but theres a cure for tranquility i believe. but since the circle of magi have seperated from the chantry, and the templars and seekers did the same and Nevarran Accord was anulled, the Mages are Hooped unless they come back to the chantry, and someone sits down and writes up a new agreement with Justinia.