Ok...

heres what you need:

5spd tranny w/ shift linkage
Clutch/flywheel w/ bolts
Hydrolic lines
5 spd brake/clutch assembly
Clutch master cylinder
Slave cylinder
5 spd starter
5 spd ECU (you can run with an auto ecu but you will have a CEL.)

Step 1: I would suggest you pull your motor out and hook up the new tranny with the motor out of the car... It will save you some skin when routing the hydrolic lines and free up a lot of space.

Step 2: Remove your brake pedal assembly and replace it with the new pedals.

Step 3: Install the clutch master cylinder and run the hydro lines on the firewall.

Step 4: Put the motor + new tranny in and reconnect (you will need to run some new wires for your reverse lights.)

Step 5: Replace the ECU (you can use the auto ecu but it will throw a CEL for the auto tranny.)

Step 6: Bleed your clutch

I don't want to write a full write up on this...
When I did this my first time, I didnt have any help and it wasn't that bad. Replacing the pedals was by far the worst part of the whole job. You will see why, you are laying in an akward position and it is a very tight fit...

One thing also, if you use the auto ECU make sure the car thinks its in park or the car will not start...