I have to agree with Tokra.
Now, I'm not sure if that logic was presented here before, but this is how I personally see the situation using RAW:
"You" on the card definitely refers to ship. However, because of the way "turn" is defined (RRG p11 :During this phase, the first player activates one of his ships. Then the second player activates one of his own ships. Players continue taking turns in this manner until all ships have been activated) whenever player has to activate a ship, it is their turn to activate for all the ships in that player fleet, even if those ships are already activated and can't activate anymore.
Based on this, I would say that Strategic Adviser can be used by a ship even if the ship is already activated before using adviser. However I do agree that the matter currently requires clarification and is at TO discretion.