Not to mention that the rules specifically say that "you" or "your" specifically refers to the ship. Without further clarification from FFG that it can instead refer to just a section....
But as I said, I do expect that clarification, because that is what makes the most sense. The huge ship rules stretch the existing mechanical framework to their limits and it is to be expected that some oddities arise, and players should interpret things like this with the view of what makes sense. Strict reading though leaves it very muddled.