morning, sjturbo,
Did you verify those V readings with a handheld multi-meter? And how is the shunt connected? Is there a 4ga wire from neg batt post to one post on the shunt, and another 4 ga wire from other shunt post to charger?
thanks
______________
It appears you have the mega watt s-350-12? I'm assuming you bought it just for top charging and EQ'ing?
It appears it is not performing at it's best, on that big bank. Try splitting the bank next top charge, and compare results. I'd certainly be interested to see how much of a difference it would make, amp wise.
____________
As for EQ'ing: At those low currents, you should isolate the 6's, and EQ them individually. The mega watt drops to about 9.5v, and that could be bucked (stepped down) to 8v using an inexpensive "constant voltage/constant current dc-dc buck converter". You could then zero in on the 12a @ 8v required to EQ a single 235Ah 6v battery. I use a separate cv/cc power supply I bought just for this, called a gophert cps-1620 ($110 incl shipping). It goes from 0-16v and 0-20a. Very handy, but a buck converter would work well with that mega watt. Either of these would do:
http://www.amazon.com/GEREE-Converter-Constant-Voltage-Current/dp/B00OV2AQDY/ref=sr_1_48?ie=UTF8&qid=1415720444&sr=8-48&keywords=constant+current+buck+12ahttp://www.amazon.com/Beautyforall-DC-DC-Converter-Step-down-Module/dp/B00L1AT9DC/ref=sr_1_67?ie=UTF8&qid=1415720917&sr=8-67&keywords=constant+current+buck+12aJust something to consider.