Space is a three-dimensional region, through which things can go and face in ANY direction. Therefore your ship is able to turn and rotate and change. HOWEVER, in starmade, there are planets and space stations that are built one way, and one way only. This means that the player model needs to be facing that same way for the thing to make any sense at all. Therefore, Schema set it up so that the character model always puts the \'down\' direction at it\'s feet instead of keeping down relative. As such, the enemy\'s gate is NOT down, down is the direction that your feet pointed before you left the normal gravity of a planet.
Remember that the chances of running into a ship that is aligned the exact same way as yours IRL would be next to null. Movies and Shows only have them face that way for cinematic appeal.