I probably shouldn't admit this in public, but I've been fighting with Portage over qt3 support for a long time (at least a year). I was constantly being told by Portage to either enable or disable the qt3support use flag for some package or other. I usually just gave up and uninstalled all of the apps that needed qt3 support (until I needed that app the next time -- then the fight started all over again).
After stumbling around this issue on several machines for way too long, I finally stumbled across the solution: don't enable/disable qt3support on a per-package basis. If you want qt3support put it in /etc/make.conf. Despite the fact that portage will tell you to enable qt3support for package XYZ, doing just that won't work. Perhaps this sounds obvious, but it sure took me a long time to figure it out... -- Grant