I had an 08 F250 with those issues. I had the entire truck repainted under warranty.Bought a brand new S550 PP 6 speed car. Garage kept. Took immaculate care of it. Had 5k on it when I sold it. Detailing on a particularly sunny day revealed they painted the hood very thin and in the contours of the hood you could actually see primer/sealer under the paint. It made the hood look like a shiny fade.
Needless to say, I sold it to someone who didn't care and got bit by the S550 bug. Loved that car, but quality control was awful. I won't be buying another new ford.