car problems!

check your fuse? look at cig lighter fuse and radio fuse

as i recall, the lock/unlock wires are primary color pink (pink with stripes of some sort). i didnt get what you said. were the wires messed up? you may have to pull out a DMM and check if the wires are getting power at lock and unlock. stangs use a 5 wire reverse polarity set up IIRC. if you dont have the schematic i can look it up. i made some notes when i did the keyless install.

as for the radio, i dont know where all the wiring for it goes (harness wise) to know if something there could have gotten messed up. definately do as Irish said and check the fuses.

good luck.

i zoned out on your having a SN95, though i figured the wires were the same color. for a 94:
the lock wire is Pink/yellow
unlock is Pink/green.
the harness is in the driver kick or behind the glove box.
factory keyless uses a neg trigger on the reverse polarity locks.

did you notice if the box had an FCC code on it; the keyless box should.

just check the wires (the schematic in the back of your repair manual will help). when you go back and look at the wires in question, check them with a test light. i.e., find the pink/yellow wire, hit the lock button and see if it lights the test light. juice is getting lost somewhere. i would look for circuit breakers, fuses, and/or fusable links.

i admit that i sorta' get the principle behind reverse polarity locks, but i play it safe. i would start at the source of power for the locks and go from there. at the switch, i think you will find one power wire and then a wire or two that shows ground at all times. another wire will show ground at rest, but 12 volts at lock. another wire shows ground at rest, and 12 volts at unlock.
folks, feel free to correct me on this stuff. i really dont know the SN95's too well, but as i recall they use very similar wiring to the foxes.

it sounds like something got messed up when you were in there the first time. just go back and check a few wires and really look the wires and connectors over. sometimes it's a real easy fix. that is the best i have to offer. electrical gremlins suck.

good luck.