When you say different from the user profiles you can create, are you referring to the overall system "presets", or the actual game executable profile you can create under the 3D Gaming tab?
If it is the latter, I think saving custon game profiles will overwrite the CAP. For instance, I created a custom Batman: Arkham City Gaming profile under said tab and it informs there is already an AMD default profile for the game. I then confirm that I want to over-write the built-in profile.
Maybe it is just a portion of what is saved under the CAP for Arkham City, but at least it seems to indicate that your custom 3D settings take precedent over the AMD ones.
Thanks for all your How-Tos in this section by the way. I find them to be very informative...
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