I've been able to give the player a unique head mesh by editing the http://uesp.net/wiki/Skyrim:Prisoner in the CK directly, but it comes with a few problems. If I change race it reverts back to default. If I change gender it reverts back to default. If I change the preset it also reverts back to default. Editing the head mesh on the presets directly don't work at all, it uses the default. (Editing the mesh on the non-preset NPCs works fine for some reason...) I haven't even gotten around to testing vampirism yet but I get the feeling that it will also revert it back to the default.
I haven't found any other way to do it. Is there one? Or do I have to just live with it?