No you should be able to use them in Quick Mission Builder as well. Stupid question but you diid put them in say: PaintSchemes/Skins/Bf-109F-4 for example?
Man, you really open a can on some of those. That battered Bf-109 in the first picture looks awesome. I'd have normally bailed out long before it got in that state.
Even when I start getting battered badly (especially from a Fw-190) I just roll over and bail out.