I'm not sure if this is relevant, when I uploaded admin section along with the webassist folder and all of it's contents, I wasn't asked to run the installation process. It was on a different hosting service, but even then, I don't recall being asked to run the installer.
I had to run the installer when I set up the local testing version though. I'm assuming that is all that is required.
Quick question: is the kfm_session_vars.varname kfm_url an important path to the functioning of the image/file upload/manager popup window?