Yeah, there are Heroes and other Villains who wouldn't care very much for those shenanigans. There's probably some sort of Engineer hero who can build a Reverso-EMP bomb.

I mean, really, we'd get fucked up for launching an attack on the ENTIRE city. 

Obviously though, you bring up some interesting points about the Presence. We can only assume that whatever it wants to achieve, we may be just a small part of it.