Port, your photo is really helpful. To be honest, I'm in that 'head scratching' mode right now based on Team Junk info. I think the two wiring diagrams are correct, but I think that 'adapter' pig-tail verbiage may be what's causing some confusion.....at least on my end. The Pin 1 listed as 'Coil Pwr'...... that seems a bit contradictory. I say this only because the coil is energized by the Red/White wire. The orange wire is what I've normally considered the 'signal' wire.....which others may call a 'trigger' wire. It's the 'ground' connection through the ECU if I'm not mistaken. When connected thru the ECU, it supplies the ground to the coil thus completing the energizing cycle. When the ECU 'breaks' this ground connection, it's just like the points opening. So, the internal magnetic field within the coil begins the break-down cycle whereby the flux field passes over the secondary and generates the HV to create the spark(s). If I'm wrong about any of this, please forgive me, and correct me.
Anyway, Pin 2 'in' is the B+, or battery voltage.....and should be at battery voltage when the bike is turned 'on' and the kill-switch (if still there) is also in the 'on' position. Pin 3, coming from the 'idle' sensor in the crank pickup, is the 'plus' (+) feed from the crank pickup - idle. Pin 4 is clearly and correctly ID's a 'ground'.....and with the bike 'on' as per previously indicated, there should be battery voltage measured from Pin 4 to Pin 2. The cavity defined as Pin 5 is indicated as not being used. So, accepting this, the final cavity Pin 6 is now the 'negative' (-) feed from the pickup. It should be noted that as previously stated in this thread, the polarity of the pickup is critical. Like any coil/magnet generator, the magnet in the rotor passes the same way each revolution of the crank as it passes the pickup. The windings in the pickup define whether one wire becomes 'plus' and the other 'negative'......or reverse. Since Yamaha co-mingles the idle and advance pickup coils in their sensor assembly, the 'common' wire is wound such as having the proper polarity to work with the rest of the electrical system. Hence the white/red wire being 'positive' and the black/white being negative.
Anyway, were it not for a rain storm today I'd have a report on my experience with a 'Gonzo' replacement. With some luck, tomorrow I'll have it wired up and ready to try. I'll report back with my results. But, suffice it to say, I'm extremely grateful for the work Jim and Team Junk have put into this. Because of this, I'll be able to get 2 more bikes back on the road. no titles......but, hey...... thank goodness for Vermont!! Tom