|Everyone has different goals for their car and their wallet. Ultimately, one must decide how much time money and effort they want to invest in a particular solution and what marginal gain will be achieved.
I actually sent the axles to Moser Engineering for machine work. They turned the ridiculously large Toyota axle flange down so it fit my chosen 10-1/2" solid brake rotor and wheels. During the process they also welded up the 6-lug pattern and drilled a 5-lug pattern for my rotors and wheels.
The 3-link was chosen primarly for simplicity and it's turn-in characteristics. I still need to fab a rear sway-bar, but not sure exactly where I'm going to put it!
If you like the fabrication process, want to install rear disc brakes, have a need for different ratios, and an LSD; the Toyota or S10 solution is a great idea. On the other hand, if you have a perfectly good JH rear axle, I'm sure you could better invest the time, money and effort into other parts of your car.