At the first I always try to choose a pacefully solution, but after play Dragon Age 2 and having Anders and Bethany testimonies I SWARE DEAD TO THE TEMPLARS! DD: LOL. Besides, playing like a mage makes me feel on the skin of the mages and more compromised to the cause.
Honestly, Im on the mages side. The Templars are not the bad guys (its true than a mage can be dangerous, but that is not a valid argument to lock them all), the Chantry is the problem. Hopefully on DA3 we will have more arguments and testimonies favoring the mages and the templars at equal parts. However, no matter what, i will remain being a pro-mage.
Like i say on other post... We all have knifes, and because some criminals commit murder innocent people, the solution is simply put in to a prison to all the citizens because perhaps they can be dangerous, just for safety?