Well, the mystery is solved.
The tech took the top of the sc off, as there was a vacuum leak that I described, and what he found was the gasket -I'm not sure if it was the one between the upper and lower section, or another location ( I'll find out tommorrow, as they were cleaning up the 4runner and they wanted to keep it to make sure its done), but this gasket is actually black rtv silicone, and it was leaking through that area. They resealed it, put it together, and it is fine. They test drove it, etc and no cel came on.
So, keep this one in the memory banks if your units develop a vacuum leak situation. When I find out exactly which gasket it was, I'll post it here, which should be tommorrow.
Thanks for all the help everyone here contributed.
As for the sts turbo, they don't make one for the 4runner- I spoke to them 2 days ago as one of my sales people was looking to put one on his GMC. With the ecu he needs to get-its not included in the price, and the intercooler, the price of the kit is 6k. Since they don't make one for the 4runner, you'll need either a custom install done, or get a tundra kit and do the mods, but then its a lot more than the trd sc. Another possibility, is the powerdyne sc, Gadget at URD has helped get a unit out for the tundras, and its on ebay. I emailed the seller, and he's looking to get one done for the 4runner. One of the plusses on the powerdyne setup, is that it bolts on, without removing the intake manifold, and goes through the throttle body. I know on my 98 f150, it was about a 3 hour job at home, much easier than the trd unit.