Maybe its just me, but I have found it to be easier to set the engine in without the tranny and then put the tranny in from underneath, especially if you are using Hedman headers, they can be a headache. Just my 2 cents. Good Luck
Mine was easier just putting the headers in the bay first, Then sliding the engine and tranny in as a unit.
I found it a real pain putting the tranny in from the bottom,twice. Next time the tranny comes out, so does the engine.
I guess everyone's got a different way of doing things.
I also use the 4 outer intake bolts.