If you want a real world example the reason we don't see much in the way of non-Starfleet traffic around Starfleet ships and stations is because of restrictions against such things. Look at when navy ships go into port at another country, they organise to restrict other vessels from getting too close to them while they are vulnerable. Starfleet vessels are advanced ships with powerful weapons systems, you don't want every man and his dog with an orbital shuttle buzzing around.