I am currently on board a ship of which i am not the pilot as i was being transported to a base but now even though we have landed at the starbase where a second ship is, i cannot leave my current ship. It says that there are no ships or facilities that i can enter. Any ideas what's wrong?
It sounds like you're using the Enter button, not the Exit button. Enter would be for going into another entity at that location. If you just want to get out to the ground, you want to hit Exit (and then Exit again on the new button that appears).
"May the Grace of Ara go with you, and His Vengeance be wrought upon your enemies."