These topics keep reminding me of how badly designed the whole Mage/Templar choice was designed:
The way the game is structured, when the time to choose comes, you get a Venatori bastion near the Inquisition's HQ, and Templars which are nowhere to be found, unless you use Power on the War table to know that they holed themselves up in a fortress on the outskirts of the Bracilian Forest, on the other side of Ferelden!.
The thing is, after a Mage Warden and a Mage Hawke, I wanted to have a more traditionalist, pro-templar protagonist for the third game, but the geographical proximity of Redcliffe destroyed that choice: choosing to tackle the distant Champion of the Just makes only when metagaming ("I know the Venatori won't make a move while Quizzy is in Therinfall because the game's plot was written that way") or roleplaying an imbecilic zealot (and imbeciles bore me).
So I ended up having my conservative Inquisitor going after Alexius, with the intent to conscript the rest of the mages, throw cold water on their dreams of independence, and finally seek the Templars...
And since the quests are mutually exclusive, My Inquisitor ended up "pro-mage" by default, simply because I roleplayed him as capable of reading a map. 