The thing is, this is something that should be able to police itself and not even REQUIRE a rule change:
1) CiCs establish at the frame's beginning who is driving the boat. More often then not this will come from the defending squadrons, though I know some CiC's in the past have had a non-flying "command staff" assigned to this. Either way, the commander of the boats should be decided before launch.
2) If the CV commander needs to turn over command to someone else, the CiC and other relevant parties (IE, if more than one defending squadron assigned to the CV, make sure BOTH COs are advised) should be made aware of the change FIRST so he can keep track of who is driving. This IMO is just good etiquette for ANY change in command during the frame. Whenever my squad is assigned by the CiC to command the local defense forces, if I have to log and turn command over to one of my other squad members I make sure to let the CiC and other squad COs in my defense area know. It doesn't take more than just a few keystrokes in the text bar.