To the points of Docking; realistically it's not that hard of a job, it just takes time and effort. For the Fleet, as said before that's gone thru many changes already. As for space ports, you could overlay elevators (aka, make one elevator for Operatives and Troopers) since each classes hanger is a separate instance and not connected like with the Fleet.
As for the VA portion, if a new class were implemented chances are it would only be for expansions (since it would involve so much work).
- Added in potential starting zone
Does not matter if it is an expansion. It's a ton of extra work that just increases work load everytime they want to extend the class stories. Unless they do a hero cls thing and have them start out at a higher level with a much shorter story, which would kinda violate their story focus on the game.