Well, one way or another, mages get more "freedom" no matter what options the player chooses.
Leliana throws everything out the window and says "do what you think is best."
Cassandra says she will do reforms... how that will go, who knows? Mages have more control over the Circles? They already made their own policies, it was just the Templars encroaching on the autonomy of the Enchanters.
Vivienne is a mage who has complete control over the Circle system and the re-established Templar Order. Best option for Divine in my opinion. Cassandra should just focus on rebuilding the Seekers.
Mages could always leave the tower, if they had the permission of the First Enchanter, according to Vivienne who is a First Enchanter. Mages could have relationships, as can be seen in The Calling with the female mage flirting with Duncan, tales of the Antivan Circle, Vivienne being a mistress, and so on. It is children, families, and marriage that was restricted, unless you had special privilage or good standing like that one mage in Fereldan who had a son and granddaughter living on his property outside the Circle.
It's difficult to kill someone you are friends with, so I'd find Templars befriending mages to be difficult, unless it is between a Templar and a harrowed mage of good standing, like with Gregoir and Irving.