Well, John Macartney once wrote of finding a car on the showroom floor with wire wheels on one side, disc wheels on the other, and one of each in the boot. So I can't say with certainty that no one ever mixed up clutch parts. But the TR6 clutch is quite a bit different, which is why both the carrier and the bearing are taller. So I doubt they ever did it on purpose.
I've had the alloy flywheel on two engines now. The TR3A seemed to lack torque way down low, so I had to be careful to rev it up a bit while launching the car (getting started moving) otherwise the engine would die. But the current TR3 motor does much better. Still needs a bit of throttle to launch though, if you just let the clutch out it will die (where the old iron flywheel would lurch and chug and keep going). I've killed it maybe twice in 6 years of daily driving.
The racers talk about how hard it is to keep the alloy flywheel mounted to the crankshaft. I've got pictures showing extra bolts and extra dowels. But I've not seen any indication that is a problem with the setup I have; perhaps because the Fidanza flywheel is machined to actually be a light press fit on the end of the crankshaft, or perhaps because I almost never rev beyond 5k (while they spend a lot of time higher than that). I used the mounting bolts to pull it into place (working back and forth, a fraction of a turn at a time) and had to heat it up to get it off the TR3A motor. I also removed the bolts after it was in place, and added a few drops of high strength Loctite to retain them (then reinstalled and torqued to spec).
The other downside is that aluminum theoretically has a limited lifetime and will weaken with repeated flexing. I probably should be running a scatter shield with it. If I ever do go TR racing, I'll definitely add a shield.
But I really like the effect, it makes the car seem much more nimble in 1st & 2nd gear. Not much difference at higher speeds though. I guess you could call it a disadvantage, since the car is so responsive to the throttle it can be hard to keep it smooth when going over speed bumps and such.