I figured out one of them. It was the starter motor cable as annotated in the image that mattjw916 posted. The other one that I can't figure out comes up from the wiring harness that plugs into the regulator. I'll see if I can get a picture of it when I get home from work. I don't see it on the page matt posted.One of the black grounding wires goes from the battery to the motor, right behind the crank case breather. Another ground wire goes to the voltage regulator and fuse box.
If you've got 2 loose connections one is red (starter fuse) one is black (ground wire) that makes sense to me.
As stated before, the #2 wire is the ground for the regulator. Are you sure it isn't a factory part? It was attached to the left bolt that mounts the regulator to the aluminum backing plate. I know #1 goes to the regulator, but what I'm wondering is what the OTHER end of it goes to. The end that the bolt runs through that is free in the picture is the one I'm confused about. You were right about #3. It runs from the starter to the starter solenoid.The big thick one labeled #1 should go to the regulator connector, thats good. The one labeled #3, that one looks like the starter motor terminal to me. Ducati usually puts a bit of red around the neck of that and as you can see, its silver from it having gone missing. Follow the cable with your finger and find out where it goes. The #2 labeled cable goes to the battery tender connector, its not a factory part.
Yeah, #2 was attached to the regulator itself via the left-most bolt that holds the regulator to the backing plate. I assumed it was a ground wire. I'll buy that #1 is supposed to be bolted to the negative terminal. That would put 3 wires on the negative side, though. Is that right? #3 leads from the starter to the starter solenoid. There is already another wire from the starter solenoid to the positive side of the battery just out of the picture.IDK what the confusion is...
#1 and #2 screw onto the metal plate thats dead center in your image. That plate joins them with the motor ground, which is probably whats already attached to that plate. That plate t hen screws onto the battery ground terminal. You don't have to use it, its just more convenient. #3 goes to the positive side and it looks like your missing another positive connection, I don't see the metal plate for the positive side hanging around anywhere.