I know that putting an extended cab front door on a crew cab, both passenger side doors, I had an issue with the wiring, even though the truck had the same options. If I recall ( been a year and a half or so ) the window would go down, but not up or something like that.
Swapped the wiring from the old door to the donor door, and everything worked as it should. Would have to check wiring diagrams to see if there were any pins swapped in the plugs though between the crew / sub and extended / reg cab. Not sure if it was a broken wire in the donor door harness, I didn't diagnose it further other than to swap out the harness.
Keep that in mind if you have issues with the wiring ( assuming it is power ) and to keep the harness out of your original door before tossing it out.