Just my opinion....
First thing you need to remove any wax. If you don't have wax/tar remover, Isopropyl alcohol does pretty good. I would do brush touch-ups with the color on the spots that are down to primer. Then wet sand 320-400 to remove any scratched up clear and even up the color. While it is wet, you should be able to tell if the color blended in. Tape off the area and spray bomb a couple coats of clear. Then buff