are you saying the edges of the scratch marks of the original paint appeared to lift or look bloated? If so that's solvents reacting.
So are you saying it hasn't been cleared and is just in basecoat?
If so, go straight to 240-320-500. or 400-500-600. you can just 600 lightly and take little material off. Go to primer and guide coat once you hit it.
Please just give us the details.
Is it in base or clear?