There is a spot at the fuse panel to hook up for power windows....If you have access to a ride w/ power windows and can pull all of the wiring that would probably help you out alot. I'm in the process of gettig ready to wire up the windows on my 4dr DX civic as I got a set of Power doors from an EX w/ harness's and all wiring...
Best of luck to you man...Hope you have it done by now...