What do you mean by body markings and limited appearances?
I know I've had trouble with my antlered bosmer. When I added the winged brow face tattoo, she lost her eye liner makeup that I put as default.
When I add an adornment, she loses her antlers. Umm. They're not detachable...
My khajit is white with black stripes and when I put the khajit exclusive crown crate tattoo on her, her stripes disappear and I see nothing.
Lastly, I have this super cool ebonheart full body tattoo and no armor to showcase it off.
Are you referring to things like this?