> yeah sorry to say I have tried a lot of these suggestions already...
> it is kind of embarrassing because I specialize in troubleshooting
> electrical systems
Motorcycle electrical systems are very simple. But having schematics helps. A LOT.
In general, the "main" circuit runs at either 12 or 13.8VDC (depending on whether the battery is discharging or being charged).
The three yellow wires from the stator are a three-phase AC system. These will normally run to the regulator/rectifier, which is -- you guessed it -- a three-phase full-wave bridge rectifier (six diodes) and a voltage regulator. The voltage regulator is for 13.8V, which is the charging voltage for a 12V lead-acid battery. Incidentally, the battery will also use function as the smoothing caps, as it is wired into parallel with everything.
After the battery, you'll normally have an ignition switch, which may be an actual power switch or just a relay trigger. The power will get to the junction box (which is just a fuse box), and on to other systems. The bike will normally run ground wires, but the frame will also be grounded.
Wes