the 93 axles should work in your car, I used them for 2 years on my 92 civic with the ys1, with the cable to hydro, if they aren't reaching then you have a different problem, did you get the mount kit for the tranny, because you can't just slap the 94+ mount on the ys1, it won't work right.
as far as using the midshaft from the 94, I have no idea.