The more I think about it, the more it feels like a missed opportunity to do something original and interesting - each time the Aerowing (or Delta Flyer if that's what it became) launched would be an event in its own right, not just another "fly out of the magic shuttlebay" shot.
That shuttlebay was hilarious. Based on dimensions, it was truly a Mary Poppins room. Smaller on the outside than it is on the inside. The Delta Flyer itself would have been too large to fit in the shuttlebay, and there is no way they could have had that many shuttlecraft, either. Of course, there's the infamous "Shuttlebay 2", which doesn't even exist.