Today I rekeyed my Craigslist factory half doors to match my Jeep key. I took photos along the way so I could document the procedure for anyone else who buys used doors and wants their Jeep key to work with them.
Step 1. Remove the four screws holding the interior trim panel.
Step 2. Remove the stake pocket liners. Pry gently under the edge of the liner and it'll pop right out.
Step 3. Remove the trim panel. Pull up gently on the panel at where the wiring harness exits and the clips that remain will pop out of their holes and the panel can be removed.
Step 4. Remove the outside door handle. This is best done with an 8mm socket and an extension; there are access holes in the door to get the socket on the nuts.
Step 5. Remove the three Torx screws that hold the latch in place using a T-30 Torx driver. Once the screws are out, the latch can be moved toward the bottom of the door enough to allow access to the lock.
Step 6. I'm shining a flashlight into the door to highlight the lock. The lock is held in place with a sheet metal clip that needs to be slid away from the lock. In the second photo below the lock and the clip have been removed and placed on the door so the clip can be seen better.
Now that the lock is removed, it can be taken to a locksmith or the Jeep dealer where they can swap the pins to match your key. I took mine to the Jeep dealer and they rekeyed them for free.
Reassembly is the reverse of disassembly. One thing to be careful of is that the lever on the lock must engage with a v-shaped bellcrank on the "presenter". The presenter is the brown plastic thing attached to the latch mechanism and "presents" the motion of the lock lever and the door handle to the latch to operate the latch. After you've reinstalled the Torx screws holding the latch in place, test the operation of the key and if it doesn't operate the lock correctly than the lock lever isn't in the proper position in the presenter receiver.
Just for clarity, this drawing is from the MOPAR assembly manual for the half doors and it shows the v-shaped bellcrank that the lock lever engages with.
I probably won't get back to working on these doors until after the holiday, but what I plan to do next is convert the locks to electric operation and provide support for power/heated mirrors. I'll document those steps when I do them.