What are your voltages @ the battery with:
- the car on @ idle
- while cruising @ the speed limit (where you noted even w/ the lights off, it will die eventually)
- with the headlights on
How is the battery relocation wired? Have you tried moving the battery back to the front (I'm guessing you can't sicne you probably have a FMIC)? It's always best to make things as stock as possible when diagnosing this stuff.
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