At this point it looks like I may have a problem I was hoping to avoid. The motor extends far enough forward, and is big enough in circumference that it is resting on the sub frame. Actually it's resting on the power steering rack that's bolted to the sub frame. It looks like the transmission may be pitched up slightly. I connected the gear shift arm to the transmission, but there is another bar called the "selector link rod" that I'm having difficulty with. I can't quite tell if it's because the transmission is pushed too far back into the chassis, or because it's tilted up as I suspect.
I had forseen this potential problem when I started the project, but the best measurements I could make at the time showed that I was going to be either ok, or as much as 1/2" short of the space I needed. The worse case scenario is that I have to remove the front sub frame and put spacers between it and the chassis. Id certainly rather not do that, but I may have no option. I'll try to figure it out tomorrow.