Are there any codes?
Does the engine stall at idle or under load-driving?
Did you replace the fuel pump control unit?
An easy fix for a bad fuel pump control unit is to use a piece of wire and connect FB and B+ together inside the engine diagnostic box.
Have you checked you TPS? If you have TRAC control, then you have 2 TPS. They are located on the Intake near the manifold. The first one on the left controls the engine system, the next one on the right controls TRAC.
Another maintenance item on the SC400 is the idle speed valve on the front of the intake manifold. It has an electrical motor that controls air at idle. Mine had carbon build up. My car had 155,000 miles when I found the buildup.
You have spent a lot of money on parts you probably do not need. I would bite the bullet and take it to Lexus and get an estimate to repair the problem. Since your car is so low mileage it is probably Carbon buildup someplace. Keep the car after you repair it. No other car can replace it under $30,000.