wow where do i begin? its allot to cover in one post. i have posted numerous post about this for the past year. all you have to do is search. I KNOW ppl probally say that but it works.
a quick over view:
i did the swap at a shop called ATOMIC PERFORMANCE in irwindale. back in 99. since then the guy who did the swap DR CHARLES AKA (charles madrid THE MAN FOR IMPORTS ON THE WEST COAST) has going to work for area 51 in irvine, which was shut down for unseen issues.
as far as a shop that you could go to. i would recommend any shop that has done any sort of engine/tranny swaps. its not that hard, but here is the trick. i still used my key which is encrypted to the ECU from my auto ecu. the main issues will be hooking up the wiring to your reverse lights, ECU not reading in 5th gear and the key issue. those are the main issues. so you need to find a shop that can accomadate those issues. the pulling of the SS tranny and swaping the 5 spd in is not an issue for any shop or person that can pull out a motor. type SH tranny will not fit up to base motor. i was and still ( i think) only person that has done this. you need to completely fab the brackets to the base motor. I didnt know this untill i had the motor shipped to the shop and paid for it. no returns. thus i had to deal with what i got. the base tranny is easier anyways to find. you can allways use the 92-96 set up. and you;ll have the p72 ecu.

obd 2 blows anywho....
hope that helps. its soo much to type i can be here all nite. but the past 2 years on this board there has been about 231456789456123546879789456132513897 threads on it.
good luck.