We appreciate the shout out & we'll take the Gold-StandardDepends how you drive. The GT was built for factory hp and torque, not boosted hp and torque. The previous generations' failure points under boost will be the same as the S650.
The axles as others have mentioned (preventable with upgraded axles).
The chassis can twist as we saw happen with some S550 super snakes, which similarly is preventable with modern upgraded chassis components. Steeda parts are probably the "gold standard" such as their stop-the-hop kit.
Your cats will only fail quickly with aggressive driving or track abuse, and there's no good solution other than just replacing them with factory cats when/if they fail.
Generally speaking, the massive heat that the supercharger generates is the enemy and not something the car was enigneered for. However, these days you can take preventative measures with several Ford Performance parts that are available and the Whipple dual IC pump kit with the HD race heat exchanger.
Very debatable whether the stock oil pump gears and/or crank sprocket will fail. It won't happen to most people but to those who it does, it's catastrophic to the engine. Your call whether you want to invest in billet parts as a preventative.
Eventually the transmission will go out like it does on all cars, but if you can afford a whipple you can afford a replacement transmission, which will be less than half the price of your whipple. At that time, if you wanted to, you could actually replace/upgrade it with a "built" transmission with heavy-duty clutch packs (typically from Exedy), billet planetary gears, a reinforced drum, and a high-performance torque converter.
Eventally your engine will fail, but when it's does you'll easily be able to find a replacement.
And if you plan on keeping the car forever and want to have a classic car 20+ years from now, eventually the PCM / electronics will fail. So when the S650 makes its exit, see if you can get replacements for those from Ford at that time, and seal them diligently for long-term storage. This wasn't an issue with the early gens because they weren't stuffed full of proprietary electronics.