Firstly, you have an obsolete galvanic isolator which ProMariner recommends replacing. It seems that indicator panel thingy is the problem, and the new unit has none. I found out my original GI was installed somewhere behind the paneling of the galley area near the reefer and elected to just cut the green wire at the buss bar behind the power panel and install the new one right there behind the stereo.
If you are not connected to shore power, and your master batt switch is on and the DC power breaker at the top of the panel is off, do you still have DC power to the other DC circuits. I am not talking here about the lights on the panel but rather the actual unit. For instance, does the freshwater pump light come on AND does the pump energize when you open the spigot? If so, there is a connection error behind the panel. When I completely modified the battery system in my 30PII to include a house bank, I found three DC power posts behind the power panel. If you will get your volt meter out and play around with the master switch and the breakers down at it, you will discover which post that switch powers and if there is power to one or more of them with the master switch off - not good unless there is a big fuse down there at the battery.
Anyway, the wire from the top DC panel breaker should go to one of those power posts, and no other wires should go from either that post or the other two to any other breaker below the top one on your panel. Now there may well be direct power from a power post to the three bilge pump switches a few inches to the right, just not to the stuff on the far left of the panel.
Here's how the DC distribution looks on Frolic today.