3.9 Stroker

What are you talking about? I have done V8 swaps in a 1993, a 1995 and the latest is a 1997. I put a 5.9 in the 1997 and it running on a 5.2 PCM. Hell I even used the V6 wiring harness on it just added the wiring for the #7 and #8 injectors. Same V6 transmission, convertor, even the motor mounts are the same. It's the easiest engine swap ever.
HELLO....ANYBODY THERE...??? 1989, NON-MAGNUM, THE SHELBY HAD A MODIFIED NOSE & ELECTRIC FAN TO GET IT DONE. THE ORIGINAL '87-'90 SQUARE-NOSE DAKS DO NOT JUST TAKE A V-8.
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That's a 2bbl Carb V-6, '87 3.9, '88-'91's used 2bbl TBI units. Unless You go Magnum, which is shorter, & swap/adapt the whole harness & fuel system You go the Shelby-Dak route.