The new motor is looking cleaaaan!!
Interestingly, if you just lift the motor up a few inches the tranny slides right up to it. There is a Nissan Special tool you can use to level the transmission apparently, but I have no intention on buying any of them. No the problem is entirely in the input shaft area. It lines up rather perfectly on the floor.What are you using to hold the CVT in place? I hope you're not trying to pick up the CVT and hold it place or anything. Should be some kind of tranny hoist you can use.