The resistance in the jumper wires between the batteries. Flows less current.
Option B makes the resistance equivalent for both batteries.
Thank you, and yes. I think that is essentially what I said, but in terms of voltage.
The voltage seen on the cell terminal determines how much current they're going to contribute to the overall load, based on their voltage. If both batteries are equal voltage to start, and there's a voltage drop between the second and first battery (assume current is being drawn out), the first battery will contribute more current. Assuming a constant current, that will only last until the voltage on the first battery drops low enough to equalize the voltage drop over the wire so that the current drawn from both batteries is equivalent. Once that state is reached, there should be no difference, other that a (hopefully) negligible amount of power lost though the higher resistance.
In most parallel arrangements that would be pretty fast, but, since we have large batteries that don't drop much voltage over the linear region of the SOC, that could be significant.
When you reverse voltage to charge, that all goes in reverse, so the affect on the top battery is essentially double, I believe. It's going to charge faster than the bottom battery until there's equilibrium.
So, it seems like this is most significant when there are many transitions between charge discharge cycles, but I'm still convinced that it matters much for a setup that primarily charges during the day and discharges at night.
All that said, I think the cell voltages likely change much more due to internal resistance than the voltage drop across a connection, so how much does internal resistance matter? I've also heard that, between the voltage extremes (in the middle of the SOC), these batteries will outlive their usefulness in most situations, so there's that as well.
All that said, if all else is equal, I agree B is the better choice overall.
Please correct me if I made an incorrect assumption, and thank you for indulging my stream of consciousness.