Hm, I see the code in CommandComponentDefs.xml where the Commander is simply defined as ship module that increases hitpoints when the ship is leveling up. In the game I see the level of my command ships, but when I click on "Promote" the Commander is shown with level 1 and no additional stats (except "Commanding") in the promotion screen. That's a bit disappointing, I would have expected the commander to increase the other stats (movement bonus, logistics bonus) with increasing level.