Join Date: Aug 2006
Location: Arlington, VA
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In general, and without reference to your boat's setup which you didn't describe, it's best to wire ALL onboard charging sources to the house batteries.
Then, the preferred method these days is to use a little device like an EchoCharge or DuoCharge to bleed off a little charging current from the house batteries to maintain the start battery.
The start battery requires VERY LITTLE charging, in typical setups.