Scramble!

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Dump all energy to the engines and chase after the shuttle, when you get close enough it will launch homing mines, you must destroy these quickly as they will kill you.

You can either stop the fighter (with missiles) before it makes the jump to hyperspace or follow it through, you will have to experiment to see which you find easier. You need to defend the shuttle until the capture craft can arrive, this involves checking the attacker of the shuttle regularly.