I think it's because there are a lot of possibilities for open strings to be played and still fit in the chord.

I had this same thing happen when I put a new switch in a prs se. Check your solder connection for the bridge wire as well as the ground connection fo...

So what you have here are extra wires that can be used in the future for coil splits(taps) or parallel wiring of the vs series wiring of the humbucker...