how to the mission unrecognized genius ?

[abadon allindia]

I am doing the mission unrecognized genius and i am the place where we have to go to XT 24 to abadoned MSF station.I reach there and killed all ships except that pirate who is controling that transport which is not indicated as my enemy.I don't know what to do after that nothing happens,I even tried to attack that transport but the game ends means i fail the mission and taken back to main menu.