The distance between the fighter storage area and the launch tubes is understandable. There's a limited number of launch tubes, and they're located within a specific area of the ship. Fighters can be stored anywhere and everywhere in the hanger section of the ship, and its possible that you'd need to carry a fighter clear from one end of the carrier to the other end, where the launch tubes are located.
There does seem to be an awful lot of unused interior space, however. I suppose we could chalk that up to the fact that the Midway is on its shakedown cruise, and still not operating with a full complement of staff and equipment.