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#1 seems to be gone, fixed where it should be - BIS.

#3 Basically, it shouldn't be harder than switching their
positions in the arrays, but having them work properly after
that is another thing entirely. Including updating the actions
on MHQ (lock, commander only) and making the leftover AI do
what it should as a player AI.

On a related note, does the 'newly AI' commander currently do
what an AI commander should?