I moved things around in the shop, got the old chassis out that was hanging from the ceiling. I positioned the body over the Spyder chassis and lowered it onto it. I have a I beam on the ceiling with trolleys and chain hoists, so this makes it really easy to maneuver the body around. I have the Zetec in the chassis about where it should go. It does look like everything will work ok with the S2 Spyder chassis, TC body, and Zetec/365. The only body/chassis issues so far are the front T mounting points, and the angle that goes against the firewall. I just need to cut out around the T ends and re-glass a little, and cut off the angle.
I spoke to Spyder, and they do make a rear cross member that mounts the back of the 365 trans, as well as the Zetec engine mounts.