Nice project and you should be proud.
Here's an easy fix for your roof ghosting. If it's really smooth to touch and no flaws except the ghosting, lightly sand the area with 1000 or 1500 grit. Dip a 1/2 wide brush in Future, flow it over the area smoothly and leave it. Don't over stroke the brush, just one sweep. Let it cure, then reprime and you're done.
No ghosts. Future makes a great barrier between filler and prime or prime and top coats.