The bolts for the lower intake will be good. You will, however, need some new (longer) bolts that hold the upper to the lower. Sorry I dont know how long they are. Next time I take my manifold off I will measure them. I'm sure someone will chime in with the sizes you need though.
as long as it is a 94-95 cobra, you will be good except for the upper manifold bolts. but just go to a building supply or hardware store and get grade 5 or grade 8 bolts of the same diameter/thread pattern just in a length a little longer than the stockers, and dont torque them too much or you will strip them!!! and if you do that then you have to tear it alll back down and get someone to put in a helicoil, then re-assemble it, I speak from experience!!!!! also say good-bye to the stock strut tower brace.