That an existing evil is not the greatest in existence doesn't nullify it, nor does it nullify the need to do something against it. Also, you do what can be done. I'd like to end slavery in Tevinter, but I don't get the opportunity to affect that problem. I do, however, get the opportuntity to affect the oppression of the mageborn.
In typical hyperbole, Vivienne says the rebel mages started a war against the non-mage population of Thedas. They didn't. They started a war against those who would keep them imprisoned, and if there was a dismissive attitude towards the plight of others here and there, can you blame them? Weren't they comfortable with the situation for hundreds of years?
I never said it was nullified nor did I say it should be ignored. It's not what you do but how you do it and HOW the mages went about it was wrong. It caused far more problems than solutions. Look at how many mages died as a direct result of the action of Anders and the conclave decision. Mages are dangerous that is fact not opinion.
Typical hyperbole? Anders basically spurred the war and as a result tensions grew high. Mages also tried to assassinate the divine who was on their side. (Well they did not know that outright) The divine that was actively trying to improve conditions. Yes regrettably because of the attitude that most persons had toward magic and mages they were ill-treated but based on what we knew about Justinia they were trying to make things better. Vivienne time and time again acknowledges the plight of mages however she does not have a victim complex. Because of her experience she was able to see more of the world and realised that Kirkwall was not the norm but an exception. Mages being free was not going to change how the population reacted to them and it would have escalated to violence. Sera speaking to Dorian says:
Dorian: The way you talk about magic, you've never been on good terms with a mage?
Sera: The Inquisitor a couple others. They were a bit weird but all right. I knew a funny boy in Denerim; started fires with his eyes. Templars nabbed him right quick so he's better now I guess.
Dorian: Better?! Do you know what your Southern circles are like?
Sera: Meals and training? So he won't starve or get stomped by a mob? I've seen both
Dorian: *sighs* You're sadly right.
These things take time, and if they were to or expect society to change in one fell swoop it would have produced more chaos. Speaking with either Leliana or Cassandra reveals that if the other clerics knew what divine Justinia had planned they would have never selected her. She was a remarkable and progressive leader that was working toward the improvement of mage conditions.
Elves have it worse. The average population has hardships but mages sheltered in their circles believe that they are the greatest victims in the history of Thedas.
One thing I love about Bioware is how they approached the mage situation and more specifically the treatment in the circles. Over the other games and books they focused on the horrible circles and basically pushed us to believe every circle in Thedas was the same and that mages were victims everywhere. It was one sided for a while so to speak. But then in DA:I they throw us a curve ball. Montsimmard and Ostwick represented a new reality. Mages had permission to leave the circle at leisure [with permission]. A human mage Inquisitor was free to spend holidays with his/her family. And other circles probably had similar arrangements. Not to mention within problematic circles you could find Templars such as Cullen and Evangeline, persons from both sides realised the problems but were not sure exactly how to change them.
Vivienne mentioned that she received insults from Templars no more than she did from nobles and merchants in Val Royeux. Life was not perfect, but Thedas is a pretty shitty place. There is racism against Elves, Qunari, Dwarves, peasants. Mages however provide a very serious threat to the safety of all mage and non-mage alike. Just look at what one abomination [Connor] was able to do. I agree that conditions needed to be better however I believe there is a place for a circle or a similar organisation where mages can be taught, supported and protected. It's why I think for mages Vivienne is one of the best choices as divine. The Templars are controlled, mages have more freedom and they have a greater say in their own affairs. I think mages in the Chantry is an excellent idea.