Rebuilding to stock spec will handle 8 PSI on a D16Z6. The Jackson Racing superchargers are meant to be bolted on to a stock engine without any problems. Unfortunately that also means you're limited to 8 PSI worth of power output. You have a P28 ECU with that car, which is very tuneable with Crome, Hondata, etc., and just needs a few basic mods to allow it to be tuned. Get a set of larger injectors if you need (I don't remember if the stock ones can flow enough for the extra power) and get it tuned, DON'T use whatever ghetto fuel management the supercharger comes with (like a rising rate fuel pressure regulator).

If you really want to rebuild it, do just the basics such as head gasket, rings, valve lap, etc. Just get it back to stock sealing capacity, don't worry about building for power. I'd just slap the supercharger on and have fun though, you aren't going to hurt anything with it and you can rebuild it later..