I have made the switch to Linux after installing the drivers all the gpus are detected how ever the only the 6990 is working and the 6450 is not. it works on the drivers that come with ubuntu how ever not amd omega drivers.
This has traditionally been an issue with the Linux drivers for both AMD and Nvidia.
I can't claim to have had much luck myself, (as I don't have two cards from the same company), but you might be able to do something with a custom Xorg.conf.