Bill,
I would first attempt to find out why the house battery bank is not charging while connected to shore or generator power.
When on shore or generator power, the house battery bank charges independently of the BIRD system (PCB6), drawing power directly from the inverter/charger. In fact, the house batteries will charge regardless of the position of the house battery disconnect switch.
First, verify that your inverter is set to charge mode and the remote panel is displaying a charge voltage. Then, you can follow the charging path by inspecting the large lugs located at the bottom of the rear run box. Charging current from the inverter enters the rear run box at lug #5, passes through the high-amperage circuit breakers, then continues to lug #4, on to the battery side of the house battery disconnect switch, and finally the house battery bank.
There should be charge voltage present at lugs #4 and #5, the high-amperage circuit breakers, the battery side of the house disconnect switch, and of course the batteries.
If there is no power at lug #5, check the output terminal (red cable) on the invertor.
Regarding rear run box PCB6 (BIRD-BCC), pressing the yellow ISO RLY SW on PCB6 will not lock in the Big Boy relay; the function is momentary, like the Boost Switch located on the dashboard. The Big Boy will not lock in until PCB6, pin 2 OR pin 3 on the 8-pin connector, sees 13.3-volts or higher for at least 12-seconds.
-Scott