I don't own Imperials, but I genuinely hope the app and game design will allow for reduced point costs by ships and faction in multiples in ways that benefit their swarms. For example, the Academy pilot TIE might start at 24 cost, but for each of them you add you can reduce squad cost by up to 4 total. Then you get 10!
Most likely, what we might see though is some sort of start in reserve condition for them. "Once your first two non-unique ships have been destroyed, instead place them in reserve and return all damage cards to the damage deck. You may place them together within range 1 of the board edge and beyond range 3 of any enemy ship next turn. These ships only count as having been destroyed once if they are destroyed again. "
Clumsy wording I know, but you get the point.