They are. 540hp (from the FRPP CAI and more aggressive tune) from the factory vs. 500hp. Plus since they utilize knock sensors, they can run a more aggressive timing/fuel map under more conditions, whereas on the '07-09, timing gets cut very quickly once temps rise. They also have more gear than the older cars. so its a win-win.
Making an '07-09 perform just like a '10 model is extremely simple and doesn't cost much at all. Granted, it would not be considered "bone stock" any longer, I understand that.
These cars in the hands of an average driver are running low-12s @ 117-118mph in all types of weather conditions. To give some perspective (since the GT500 is being compared to a 2-seater) ... my '02 Z06 ran 12.3 @ 116 stock (stock tires, too) and I paid $45k for it new back in Jan. '02.
I think this argument here would be a moot point if it were not for the "Shelby" name which has everyone's panties in a wad. honestly, I couldn't care less what they call it. It's the new version of the smash-hit, Terminator Cobra, and it responds exactly the same way, if not better, to modifications, while maintaining a far superior ride and build quality. And if anyone remembers those cars when they were stock; here in Texas you were lucky to run 13.0 @ 107mph in a bone stock Termie. A bone stock '07-09 GT500 will do that missing 2nd gear on the drive down the strip, and taking inflation into account, it costs the same as an '03-'04 Cobra...unless someone was foolish enough to pay a $10k premium over MSRP to have one of the first '07s out there.