i like the idea.
and would like to add something. since there are capital ships why not implement the possibilty to join a factions navy? i.e. to fly missions for them in their own fighters/ships which you cant get on the market. i thought on a contract may be. u have to stay for 25 missions and you get rep and some money as reward. but you will only be able to fly in the system where the capital ship is. your fighter doesn't have the ability to jump .... just some basic ideas
edit:
with the missions you "proof" your loyalty and get reputaion. and this rep will allow you to get your hands on military tech of this faction you are fighting for. if you quit your missions befor your finished you will be a wanted(?) and be hunted not by the police but by the navy.
on the other side if you are on a mission and may be players are involved in the situation the capital ship jumps in you cant be identified by other players as a player but only as a "navy pilot". i think this idea is kinda like funny and you wont be chosed as primary target.
(english isnt my first language. im thankful if you correct me via pm
)