The only '67 A-body I've had was a Cutlass with an Olds 330 and a ST300 trans; if I remember right, the 3 wires went to the switch on the throttle linkage assembly that told the torque converter when to switch pitch. Not sure if Pontiac is the same.
Converting to HEI: do you have a volt meter? The wire you found hot while the key is in run is probably running through a ballast resistor and not supplying full ignition voltage. If so, you'll either want to bypass the ballast resistor, or simply find another terminal on the fuse panel that has full ignition voltage in the Start and Run position, then run a decent sized wire up to the HEI. (It's been so long since I've done that conversion that I was able to just go to a junkyard and pull a length of wire off an HEI-equipped vehicle that already had the correct connector on the appropriate sized wire.)
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Mike
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