Have a look at this website, under elektrik.
Die Yamaha XTZ 660 Tenere Seite
It has a very good explanation of the regulator-rectifier and the wire connections and about everything on the xtz660. Only its in German.
For as far as I understand the brown wire should be connected to the ignition coil, to the positive connection. But my German is not that good, so I am not sure about this. There is no brown wire in the loom if it was not made for this specific 6 wire regulator-rectifier.
Best is to write a note with your question, under "feedback" of this site, there is a possibility to react.
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