hektikwon

I've decided to do the 3.4 swap on my 91 4runner. First I'm going to swap out my auto for a manual trans. I've always wanted mine to be manual & I don't have get the tranfer/adapter or auto tranny for the 3.4. The tranny swap should only run me $200-$300.
My question is what shouldn't I hook up before I put the engine in. Meaning what will I have mod/ change for the engine swap. Like maybe lines or wires, etc.
Also in doing the 2" body lift, what extra components other that shift extenders, radiator mount & bumper brackets should I get.

Thanx guys!