So today was a day of test fitting everything that may possibly be an issue. Meaning everything that bolts into the engine bay near the engine.
Started with the hood.
I have 2" to the hood skin and 1.25" to the brace. Should be lots.
I then moved onto the heater control valve.
Have ok room there, will make the intake pipe a bit tricky. But I should be able to manage.
Then air box, this is one part I do not want to sacrifice. Good flow, great filtering. I have a clearance problem here, its hard up against the air box.
My solution to that was to try and manipulate the filter head to give me some clearance. I removed the rear of the two bolts holding it into the mount then loosened the hard lines. From there I was able to gently move and bend the lines as I went. I ended up with about 3/4 of and inch clearance and can go more if its still a problem.
I still plan on making a proper bracket for it but this will do for now. I may remote mount it all together if I end up making a custom large chamber intake manifold down the road.
From there I looked at my throttle clearance issues. I took the bracket off and was able to move the throttle arm ahead 1" total. Any further I would run out of flat area to to drill and the arm would foul on the #4 injector. That one inch and the corresponding shortening of the rod from throttle arm to pump gave me the room I needed. Great Idea BTW!
You can also see my kick down cable loosely hooked up. I just need to make a bracket to hold the other end.
I worked on the thermostat housing plug and heat did the trick. Got the old steel plug out and test fit the factory Toyota 108c A/C overheat kill switch. It turns off the A/C when the coolant temp gets to 108c, nice feature to have.
From there I looked at what was going to be involved with mounting my A/C compressor on the passenger side of the engine. Unfortunately in my setup its not. There simply is no room to mount it, use the air box and run an intercooler pipe. They all 3 want to occupy the same space. So the Isuzu A/C compressor will be used instead and I have to ditch my York endless air

quite unhappy about that. Ill have to get a puma or something to replace it later. One benefit of that is there is not a big mess of v belts across the engine.....looking for bright sides here lol.
My spirits where raised when thanks to another thread in the 80 section I now know that getting the stock Cruise control to work will be a pice of cake. Literally all plug and play with 1 wire splice. Very very happy about that. I took out the stock later model cruise module and installed a 91 3FE one I had, it plugged with into the harness and the wires colour matches. The throttle cable will now come from the throttle pedal to the cruise actuator then a 2nd cable will go to the throttle on the engine. Super clean and stock reliability. I love the fact that even this Lexus LX450 was build modularly to allow mechanical non ECU driven engines to work with all the features thank you Toyota!
So now that I have test fit everything as far as engine clearance and components its onto the next step. Tomorrow I will pull the engine and trans back out. I have one spot in the tunnel I need to clearance for the bell. Then I can finish weld in the engine mounts, also a bit of trimming on them to clean them up as well. Then drill the holes for the bolts and the mounts are done. I need to get my needle scalier in there to clean off the surface rust then a coat of POR15 to seal it all up. I will also dive into the wiring harnesses. I need to remove a ton of EFI related wiring from the engine harness and integrate the later NSS with the early. The later NSS has one less wire because the trans has one lest manual shift point. Im going to try and make the harness so the dash shift indicator is still functional I just need to get the early 3FE PRND32L dash insert. There is also a few wires from the EFI I plan to keep in the harness one set is for the exhaust brake both throttle switch and solenoid, one set for the trans temp sensor for my glowshift gauge then a few spares for future add ons.