I think the 1/4 skin may just be a typical skin. I had one that the line was 1/8" too high. Even measuring the original..the kicker was, an identical part number had it in the right spot the next time I bought them. I'd line up the tops and bottoms of th edoor and 1/4 first. Then address the body line. The door should be the guide. You will mess up the paint to get it decent, but that line on a Challenger is so obvious, not fixing it would really be a big deal. At least to me. As far as the fender patch, like they said, start at the back and work forward. If the patch is welded crooked, can you cut it off and reweld? I make a template of whatever is left of the original line, before I cut the rust out..Then you have a guide. If not, you could just un fold the fender crimp, and add some metal to get the right profile. A little filler is ok, but I wouldnt sculpt too much there, it will crack after some racing.