We defaulted to 8080 and 8443 so that ThreadFix could be run on machines that were already running standard webservers on ports 80 (HTTP) and 443 (HTTPS). Changing the ports ThreadFix listens on basically just involves changing the Tomcat ports. Some documentation on this can be found here:
I _believe_ you should just need to change the two <Connector> entries (one for 8080, one for 8443) to use different ports and you should be fine.
Personally I think it is a little strange that a proxy would want to listen on 8080 because that is a typical "alternative webserver port" but that may be my bias (and desire to use port 808 for ThreadFix) speaking...
In any case, it should be possible to reconfigure the ThreadFix ports.