Small craft Pilot instructor: Provides the AI of the carrier pets, other deployed pets some advantage to speed, damage avoidance or better weapon accuracy or piloting skill. It allow your captain to train these pilots in the AI controlled craft to gain an advantage.
One could go further and expand on this concept to even add a new skills line for the captain
Pilot which based on level of points placed could effect the above better or provide other bonuses.
Lastly, One could go one step further and have another trait that would teach that pilot to do another small activity that they couldn't do on their craft before. Take the pets that have beam arrays, in addition to beam overload, maybe they learn scatter shot from this new trait or skill line.