Check it. Wanted is a parable about fallibility of man trying to live up to an externalized concept of God.
The loom is a metaphor for the Bible, the fraternatiy for the Church. Remember where Sloan says "I interpret, you execute" or something like that?
So the fraternity try to execute God's will by literally following the loom without questioning the reason behind it. They do so by blind faith. Even Fox who tells a personal reason for her belief, does not try to explain how it works only that it does. She is a pragmatist.
But we then learn that Sloan has been ordered to assassinate his own fraternity. He decides to reject his faith rather than to commit suicide. In doing so he accepts responsibility for his own actions and starts picking targets based on his own reasoning.
Wesley discovers the truth of Sloan's interpretation and goes to confront him.
Then comes Sloan's monologue. He asks the fraternity a question. The question basically boils down to, "Should you blindly adhere to the dogma of the loom, or will you not be better off if you disregard it and accept responsibility for you own actions?"
As you can recall everybody chose the later, with the exception of Fox. She surrendered her will and her life to God, right after giving Wesley the keys to the Church so it can be created anew.
To tell the truth, watching her end her life saddened me. (That last statement might have nothing to do with the analysis of the movie, I just wanted to get that off my chest.)
Wesley then kills the last remaining fraternity member, Sloan, leaving himself. Now the Church is purified of infidels and can effectively carry out God's will again.
That's how I understood the ending. You may believe that Wesley avenged his father's death, and has no intention of rebuilding the Fraternity. Indeed that is the question. What happened in the end? Wesley makes a monologue that he has now taken control of his life. He uesd to be a boring office drone but is now an ass kicking assassin.
But what is control? Is not control accepting a moral responsibility for your actions? Has Wesley really taken control of his life by rejecting his previous mundane life for a confining religious doctrine? Is not Wesley actually less free if he blindly chooses to execute orders granted to him from a Omniscient Loom?