Your trans wiring will have to be changed, and I can appreciate you trying to do this on the cheap, so let'* assume the subframe from the donor is out (since you don't want the 65E anyway). The only difference is that the 93 uses a thermal switch (thermistor) that is either open or closed to put you in limp mode if the trans exceeds a certain temp, where the 94-96 trans uses a sensor to report to the PCM the actual trans temp, and lets the PCM determine limp mode based on temp, rather than a dataline bit.
The conversion has been done a couple times before from 93-95, or 92-95 on this Forum. The 93-96 should be no different.
Wiring harness, PCM, and engine from the donor. You'll end up with a traditionally unsupported PCM, but Jet does have a couple modules for you, and DHP may be able to help also when you decide to add a few mods.
The 4T60E is NOT prone to a higher failure rate in 96'*, despite the S2 motor, but it may have had more torque management in the PCM. You should be fine, since you'll use a 96 PCM.
I think you can do this for the cost of the motor and PCM, plus a couple hundred more max. FrankenBonne is your guide. Just make sure your trans is in good shape to start with, and be prepared to deal with it later, as you would anyway. It might be cool, since the S1 is very harsh on the second gear clutches, since your S1 L67 peaks it'* torque right at the 2nd gear shift, but the S2 won't, so it'll put the wear and tear somewhere else in the trans.
It'll also relieve the low-end hammer job your S1 would give the diff. The S2 isn't notorious for that, as it delivers it'* torque at a higher RPM.