Kinda hard to tell from your pics but the power lines for the bulbs could have been branched off the +5 volt powering the board.
The bulbs aren't actually powered off the jamma board but they may be powered off the same 5 volts that feeds the board. Even though they are 6 volt bulbs, they'll still work well.
I don't know if you're saying you then have an unknown pair of wires or not? But the jamma standard did include a set of lockout coil wires to the coin door that may or may not have been present.
If you haven't already, look up the jamma pinout then you will have a much better idea of what's what on the connector.