Pardon the delayed narrative... I uploaded the pics and started eating dinner. Sorry, not sorry.
These f*cking notches. No one ever mentioned needing these f*cking notches to clear the top two hex head bolts on the rear cover (note: Gen IV engines should have counter sunk SHCS that wouldn't require this mod). I discovered this when the top of the bellhousing wouldn't seat against the block - out comes Mr. Flashlight and low and behold there they were f*cking up my day. Out it all comes so I can lay under the car with a die grinder (erasing the witness marks) and cover myself with aluminum slivers. The ICT converter adapter bushing is in the back of the crank.
After that it went in fine, and she is showing -2* of downward angle (with room to go up to massage the working angles of the U-joints). The turbo drain plugs on the Holley pan are really really really poorly placed.
I had to flatten the front of the dip stick tube to make it easier to get the assembly together. The rear most coil post on the valve cover got cut off a few days ago. The back of the cylinder head clears fine along the heater box, the heat shield needed a little tweaking on the corner behind the cylinder head. For reference the engine is setback ~1/2" (there is an insane amount of clearance between the oil pan and crossmember - you could fit a Big Mac in there).