I kept my Mk1 carrier all stock 6V for the restorationm so I could rely on the wiring and troubleshooting info int he manuals. I did add a 12 v battery in the wireless battery box to ONLY run the starter. I disconnected the 6v off the press to start button in the dash. Wired a much lighter wire back to a 6v solinoid that handled the heavy amps from the battery to the starter.
Spun the 6v starter with gusto, but didn't hurt it and was a great starter! Always had to charge the 12V before an event and we carried a spare fresh charged 12v in the club that could be swapped out at events in a pinch.
Having siad that, I had a similar issue that I thought was a coil breaking down under load.
Turned out it was a bad cell in the 6 V battery, as that is in the charging circuit with the generator and the cut-out.
Replaced the battery and the running issues went away, nevver to return.
My .02 worth...
anouther issue might be something getting pulled up in your fuel lines that is collecting to block the flow, then settling back down when you have stopped.
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