When I go to my science officers skills "Tractor Beam II" is level 3 and "Jam Targeting Sensors I" is level 9.
My current science station has the "Jam Targeting Sensors I" available to use in combat. How do I put the skill "Tractor Beam II" on my science station?
Also, my science officer is a Lieutenant but it says my station is ensign. How do I make the station lieutenant?
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You cannot put Tractor Beam II into your science station. Each skill has a rank set to it, from left to right it is:
Ensign, Lieutenant, Lt. Commander, Commander
Since your Science station is only an Ensign station, only the Science Ensign ability will work. You cannot upgrade the station, however when you get a new ship you will get new stations.
To see which ships have which stations you can go here http://stofan.comxa.com/databank/starships.php