Whoa, I didn't read your entire post...
Line-X your flairs?
why?
You will need to mask the area to be able to fit the rubber trim back on. Line-X
adds significant thickness depending on how they apply it.
So it would be easier to leave the rubber on and mask over it. I would discuss it
with the Line-X installer, and see what the end result would look like.
The rubber trim keeps the flairs from grinding into the paint.
Maybe you Line-X your rockers with the flairs removed, then put sprayed flairs on over it.
The original mtg. screw holes probably won't line up anymore...
Search the forum for Line-X, there are pic's of other guy's rigs that have done the rockers.