Chuck-- a wise decision. Also, rid yourself of the annoyance of that 1-both-2-off switch. At NO time should you ever charge or discharge the batteries separately-- unless you want to shorten their lives (battery murderer!). As one bank they should be always tied together, charged and discharged together, and stored, maintained and replaced together.
On Diana (H25) I have two size-24 house deep-cycle batteries which are one bank. They are wired to one Blue Sea off-on switch and are never separated. The 3rd battery is a size-24 starting battery for the (outboard) engine. This CAN be used for the house circuits in an emergency (which would be a complete failure of BOTH house batteries at once; so how common is that?). The motor's alternator (tiny as it is) CAN charge the house bank if necessary. Also the 115-vac charger CAN be used to charge the engine battery (as a second bank)-- but otherwise in all normal cases the engine (starting) bank is entirely separate from the house (deep-cycle) bank.
(If the engine starting battery fails I have to pull-start the motor. That's good enough as a fail-safe as it's not that difficult and a cheap solution.)
So it comes to this-- never should two different kinds of battery be combined in one bank; never should multiple batteries of the same bank be separated. Unless you have money (and boat) to burn.
