i know what you mean about trans. we have a weird stock clutch setup on the stock 5 speed. we had to rebuild it and went to 5 ford dealers and 3 auto parts stores and every time they brought up the parts list you know a simple black and white drawing of it with part numbers ect. it was a different setup (84 rs turbo capri fox body).
we dont have this setup on our car. but this is what they all said we had.

the cable mounted in a different spot then there was a rod sticking out of the side of the trans, that had a bracket on it that rotates. the clutch cable end hooks in to that then on the other side of the bracket is a hole and a dog bone connects to the clutch fork.
we have a push style clutch not a pull yet ford told us where wroung lol.sorry hard to explain . we had to custom make the bracket since the bearing where gone and we could not get new ones.
i dont know why but
www.stinger-performance.com is not working. they have a adpater plate to bolt any t 5 trans up to the 2.3 bell houseing. best bet is the t-5 used in cobras ect.
we plan to run the stock rebuilt trans till it blows. the only thing we have to worry is breaking the tail shaft off. the stock trans is not rated that high but there is people who have 700hp cars that wheelie that havnet broken them so go figure.
if you do re build the motor and have the 4 inline intake get a 4 square pattern lower iintake.gut/ knife edge the lower so the center is a point, then get a 65mm throttle body.
gut the upper intake which is a bitch and not worth it if you have spare steel and a mig welder. do like we did we made a custom upper intake. its more or less a spacer. the throttle body is now face up and down instead of being side ways. this works out since if you gut/knife edge port what ever you want to call it the lower you have to gut port the upper. the problem with gutting porting the up since its a 90deg elbow 2 of the ports wount get as much air flow. since we made a riser and the throttle body sits 3 inches above the lower on center all 4 ports get the same amount of air. sorry if this is confusing.
or you could be bad ass and get these.
http://www.esslingeracing.com/catalog/page16.pdf
http://www.esslingeracing.com/catalog/page15.pdf
i tried to talk my buddy into going with the side draft webber turboed but he thought it be to hard to tune. i figured it be cheaper then efi.