either leave it unplugged,take it off and block it,or use an obd1 manifold
OBD1 automatic manifolds still have an EGR valve location. You can block it off or leave it unplugged. If you are using an OBD1 manual ecu, you won't have any problems. If you are using an auto ecu (which i dont think will work bc the tegs use a TCU to control the tranny) you can still leave it unplugged, but you will get a CEL. Its not a CEL that affects performance in any way, though, just an annoying light on the dash.
If OP has a full 90 teg with EGR, im guessing its auto. OP - you know your tranny won't mate to a B series right? You can use the auto trans, but you will have to notch the passenger frame and crossmember, and make a set of custom mounts. You will also have to wire the TCU to the trans. Use the link in my sig if you go this route.
If you are going manual, I *think* you have to get a manual intermediate shaft, im pretty sure they are different than the autos.