Glenn - Yours looks great as well. I have the tonneau cover and it does fit with the bed rails. However, when I get it repainted, I'm having the rails removed and holes filled as they do no provide a secure mounting option. I also have the Rhino lining in the bed which protects it perfectly. It there were scratches/dents in the bed, no one notices now.
I've had mine for over four years as it was handed down to me from my Uncle when he passed away (him being a cardiac surgeon his other cars consisted of Mercedes and Jaguars of which, all went to his immediate siblings). I'm more for reliability now as well and am trying to convince myself to get the paint job. I will say, in the four years I have had the car, it has never let me down or failed to start (other than an old battery that went bad).
Here's a pic of the bad side which is limited to the door only.