The original Eleanor wasn't even a Shelby
You probably know that Eleanor was the GT500 hero car's name in Gone in Sixty Seconds, but that's not where the name originated. Eleanor was the hero car in the original Gone in 60 Seconds -- the 1974 we-don't-need-no-special-effects version -- but that car was a Mach 1, not a Shelby. Incidentally, the chase scene in that original movie was so epic that the writer-slash-director-slash-stunt driver literally died trying to film it's even more over-the-top (and never-released) sequel.
It wasn't until the infinitely flashier Jerry Bruckheimer/Nicolas Cage version that Eleanor made the transition from Mach 1 to GT500 superstardom.
It's actually more true to a real Shelby than a restoration
Bruckheimer wasn't about to film a movie with any old "boring" car, no matter how much legitimate racing heritage it had. Thus, a trio of real GT500s went under the proverbial knife, taking on a much more modern and stylized look in the process. In an odd way, that almost made the car more original. See, back in the day, Shelbys were basically hot rods, precursors to what today would be called "tuner" cars. They were Mustangs that were properly souped up and came with their own certificates of authenticity, and the Bruckheimer-era Eleanor took that same concept and applied it right back on the Shelby.