Gerald and Bob,
I think the only advantage to cutting power to the ECM is during storage when no outside source of power is available, that is hard on our batteries. I discussed this with Cat Engineering and they did not have a requirement to maintain power on the ECM and in fact there are vehicles that are wired this way. From a reliability viewpoint I considered that CAT may want this ECM in a stable state voltage wise using about 20 watts of power to keep the temperature stable and not pass through condensing temperature shifts. They indicated that they have it well sealed and that was not an issue.
I agree with Gerald that adding complication, like a relay contact, or a manual switch contact could induce a voltage drop or an open kind of fail while driving is an added concern. There is a small chance that things can get messed up in the ECU rewrites with many cycles of on and off power. Still there are folks that do not have a powered option in storage so we do have a real problem to deal with as the question is what is the best way to handle this issue.
Probably the best way to handle this is with a wrench. If you are going to store long term disconnect the main + lead going to the chassis battery until it is time to go. While not the most convenient, it is a safe way to handle this issue without adding wiring complication. It also satisfies that you have a minimal amount of cycles of powering down the ECU memory, you can still use the chassis battery switch to depower all but the ECU. You should not be overly concerned about this ECU rewrite given you have done it already every time you have changed your chassis batteries or removed the terminals for cleaning. When the batteries are reconnected give it 60 seconds or more for the ECU rewrite before turning the ignition key to start....most of us are not that fast anymore anyway so this is not a big concern :-)
Gerald if your thoughts are different then this, jump in if I have overlooked something that you are concerned about that I am unaware of.
Later Ed