Hi Brett,
I got to the bottom of it. My own mistake I did'nt realize that the config tool was creating a web.config file. I assumed it was creating a app.config in the c:\program files\Axosoft\Customer Portal. repointed it to the website virtual locations (c:\inetpub\www\Customer Portal) and created the config file and it works fine.
It probably would be useful if the the text on the config tool was a little more explicit (ie say Destination Location for web.config file or something) as this has confused some other people out too.
Thanks for getting back to me.
Leo