is this a good tested battery? how was the alternator tested?
i dont know how well the manual explains out how this all works. but on your particular bike this has an electromagnetic alternator system. this means there is the stator coil, this coil puts out ac voltage to the rectifier/regulator to break down into a charging dc voltage. this is regulated by a field coil. the field coil is what creates magnetism for the stator to get its energy from. the regulator regulates how much magnetism is created by controlling the ground side of the field coil. thus varying the voltage as it needs to. so to be sure if this is all working, you can do what is known as a full fielding test. this will tell you if the stator is putting out adequate energy for the rectifier to break down to charging voltage. a good stator output voltage is anything above 30 volts AC. on that connector to the alternator, there should be the three yellow stator wires, and two other wires. those to other wires are to the field coil. so keep that unplugged and do the following. hook up you meter to read AC voltage, and connect it to any two of those three yellow wires. then hook up jumper wires from those other two wires to a comparable motorcycle battery source. the one on the bike can work just as well. this send all battery power to that field coil, so this stator should but out some good voltage. so start the bike and observe the voltage output of the stator. while giving some throttle, it should go well over that 30 volts AC mark. if not then the problem is with the field coil, its brushes, or the stator. and that is when you need to rely on the resistance checks. but if this does put out enough voltage the regulator/rectifier is not doing its job, so it would be at fault.