Full list of parts needed:
-4speed transmission
-split case (or use the old vaccum one

)
-3f bellhousing
-clutch master cylinder (from an 85 FJ60)
-Clutch slave cylinder (from ad 85 FJ60)
-transmission tunnel cover from FJ60
-pedal bucket from FJ60
-clutch lines from FJ60
-crossmember from FJ60(85?? unsure of necessary year)
-Flywheel from 85 FJ60
-clutch kit(clutch plate, pressure plate, T/O bearing, clutch fork, pilot bearing, clutch pivot ball) for transmission from 85 FJ60
-driveshafts (front and rear are both the correct size) from FJ60
-if you can get the matching front carpet from an FJ60 you will be happier too(the FJ62 carpet has holes from the auto shifter and the dead pedal) the FJ60 carpet should fit fine and look much nicer.
-Shifter boots
A few tips:
-You will have to bypass the Nuetral Start Switch on the vehicle it is a large blue connector. there are 3 wires on it one is for the reverse light(iirc) the other two are the NSS. this thread covers how to do it here is some more info that I received in a PM with pictures
archtimb said:
This is for a H55 install, but the harness on the 4 speed is probably the same.
Near the PS firewall are the electric connectors for your tranny & transfer. The transfer connections stay the same. We are dealing with the two round connectors for the tranny, one white, one blue.
When your A440F is out, you will have an unused connection at the tranny for the AT temp. sensor. This connector will plug into the reverse switch connection on your new H55! This contains a yellow/red and a yellow/green wire.
Now comes the magic. You need to open the harness of your tranny connection where the two round connectors are. On the blue connector, cut and solder the two heavy gauge wires together (white & black). This will jump out your NSS. Now would be a good time to install a NSS kill switch (hint, hint). Place a switch between the white & black and you will be able to select when your starter will work!
The light gauge black wire in the blue connector is one side of your reverse lights. Cut this and solder it to the the yellow/red wire going to the old AT temp sensor.
On the white connector, cut the blue wire and solder this to the yellow/green wire going to the old AT temp sensor.
Cut and cap the red wire on the white connector.
Done.
Make sure all the wires are insulated and tape/heat shrink the whole thing back together.
Disclaimer: I have no idea what I'm talking about. Do this at your own risk! All I can say is, it worked for me...
http://archtimb.com/Images/cruiser/H55_1.JPG
http://archtimb.com/Images/cruiser/H55_2.JPG
http://archtimb.com/Images/cruiser/H55_3.JPG
I am unsure about the reverse light procedure have not gotten to that yet, will post up when I am done with that if it works for the H4* install.
-Use a transmission jack IT WILL MAKE IT SOOOOO MUCH EASIER
-Put a ground wire from the starter to the transmission and the transfer case to the frame(it is on the automatic as well I just transferred it to the manual and moved it forward)
-While the transmission is out replace the rear main cuz its worth it while its out before you need to take it out again
-Clean everything off before putting it in. Makes the job a fair amount easier and looks better in the end.
-Also when taking out/putting in the pedal bucket there are some bolts behind the defroster "hood" It is a pain to get to them with it on, but I think its harder to take it off then t get at them, just unscrew it and pull it as far away as possible.
-Take off as much of the dash as possible without taking the whole thing off.
-Take out your steering column(not too hard just 4 bolts inside and one on the steering linkage) it makes it much easier to get the bucket out.
-Give yourself enough time. I did it in about 6 days, but it was me working about 6-8 hours a day(I also some how ended up with an FJ40 4 speed transmission and got it all the way in before I realized that I had no way of mounting it to my frame because the FJ40s mount it using the bellhousing to the frame) so that added a few days to the list.
Thats all I can think of at the moment PM me with any questions I can help with
Good luck and I hope you enjoy your new best mod ever!!