Your explanation helped. I think my system is doing what it can but 4 days rain and canoes on has just squeezed the rocks dry. My battery did come back a bit on the drive with the camper main knob off. The alternator though good 140 amp is controlled by the truck computer and does not seem to put the juice through the separator .... maybe it is throttled.
The series option is out. I like to keep it as simple as possible. Weather and canoes on top did me in. Sun this afternoon should help.
Vic having s second battery would solve the lack of energy over time. We use mostly the isotherm small fridge and led lights, charge iPhone and iPad. I did revive that LiFePo4 DIY battery and will consider finding a place for it. Just 30 lbs more. Put the two in parallel.
Sounds nuts I know (the truck hood is hot ) but having the flex mounted on the hood would be a great solution to canoe on roof. Maybe a curved mount on canoes hull!!
Light canoes stay on roof when popping up.
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adding the 2nd battery will sure help when the sun doesn't co-operate. Takes a long time to recharge two big batteries though!