Re: Shadow Angelus
If you have access to it you may want to read the background material from shadowrun on the rise of magic, I think you will find it helpful on how they progress the rise of magic.
You could even use some parallels of how they develope the races as recessive genetic traits being activated by the raise of the mana(magic) levels. Instead of manifesting as different racial trait sets, it could manifest as various manifestations of ESPER power sets.
I know in the past Eosin has expressed a dislike of the shadowrun campaign setting, however there are many things you could use for your game that would be helpful. You could also use some of the shadowrun conversions that were previously done and posted on the hero boards. I cannot remember who posted it, but if there had been interest I was going to run a game with it before leaving Oklahoma. It had good rules builds for cybernetics and also adept powers(a branch of magic you may want to look at). I may build you an Adept example and send to Eddie to look at.
As to the extra territorial situation. You would not be able to truely use this. In shadowrun this occured within the Archologies(self contained cities). You could not fit a true Archology into the city as described. I think the limited independance as previously described would for my money be your best bet.
Also something to define is not just the public outlook on magic and espers,
you also will need to define legal guidelines for the use of those abilities. You will have to consider the civilian use of these abilities. Even is espers are not commonly known, the are sure to exist.