You probably have the older system that clutches the jacks when they are retracted. The shear pins in the jack will eventually shear and the jack will stop working. In my case the jacks always fell to the ground and had to be wired up to move the coach so this may not be your issue.
These jacks are simple screw jacks with a small electric motor geared way down to handle the load, not rocket science. Very similar to Atwood's landing jacks for a fifth wheel.
It looks like you've done quite a bit of troubleshooting but I'll include this for completeness:
There are several good troubleshooting guides on the net to help determine the issue.
Here and
here to start with. At least one of these shows how to force a fault and use the keypad to run jacks individually. This will help you determine whether there is a shear pin or other jack issue. Not sure they mention it but you can "hot wire" the jack motor with 12VDC to see if it will extend all the way and start lifting the RV. Biggest issue with that is finding something to plug into the connector. Or just cut the connector off and splice it back on later with a waterproof splice.
If it is the jack, you can remove the jack pretty easily and work on it on the bench. Unhook the power connector and remove the four bolts that hold the jack and "hat" onto the chassis brackets. The three screws on the top of the jack gear housing allow you to get the motor and gearing off. Note there should be a lot of grease inside. Also you need to keep dirt out of the gearbox so clean up the outside before you start taking it apart. Obviously take lots of notes/pics on where the "hat", washers, gears, etc are located.
Shear pins are available from Atwood, electronics are another matter. I believe I read that Atwood does not have the controls for the old style any more and they will want you to buy a whole new system.