Yes that's right both 2.9s. 87 is now donor. Clutch bypass switch? Just swap the computer? Floor shift. Will I need to change anything as far as flywheel torque converter or anything? Also does the transmission harness plug in or will I need to splice in?
Yes, you will pull the flexplate off the 1987 engine and put it on the 1989 engine, also swap starter motors
There will be a clutch switch on the clutch pedal push rod, it plugs into the main wiring harness on the '89
The A4LD will have an NSS(neutral safety switch) just above shift linkage, and it will also have 3 wire solenoid plugin just in front of that.
These wires will be removed from the '87 and installed in the '89
Main Ranger wiring harness has the plug ins for both manual and automatic, so as you trace the wires back on the '87 you will find they plug in to the main wiring harness.
Then find those same plugs on the '89s main harness
Part of the NSS wiring plugs into the Clutch switch plug under the dash
Can't say they will be same connector types but should be
Ford changed connector styles over the years, but since you have a donor you can unpin and repin connectors if you run into that
Not sure if your '87 had a column shifter or Floor shifter?
If column shifter then you need to swap over the steering column and part of the dash for the gear indicator.
Or use a custom floor shifter since the hole in the carpet is already there
Computer runs the 2 solenoids in the A4LD, Torque convert lock and 3/4 shift(OD).
Manual trans computer('89) won't have that solenoid control software inside so you need to use the '87 computer.
One heads up and I include this because I paid the price to learn it.
You ALWAYS install a torque converter on the transmission FIRST, then you install the transmission to the engine
The torque converter has slots and splines that must ALIGN inside the transmission to the Main Pump.
You put the torque converter onto the input shaft and push it back towards transmission
It will stop, now turn torque converter as you push back, don't need to push hard
It will slide in more as you turn, keep turning and pushing, should slide in a little more 2 or 3 times
It is now aligned
To make sure put a straight edge across bell housing, torque converter should be back behind straight edge
If you don't do this then when you bolt trans to engine and tighten the bolts you will crack the main pump, and trans will be gone, full rebuild to change the pump.
When engine and trans are bolted tight the torque converter will slide forward and bolt to the flex plate