Fights mostly depends on pilots skills, so you cant force them to not run away from or engage other fighters close to mathership. Ive noticed with game progress and skill inprovement they fight much less random and close enough. When you dont want them to engage other ships too soon just use them after you engage fighters with mathership to later undock them. There is a button to dock single fighter when selected but he need to be out of group for it. I dont know how far you are in game and not sure about what part of game you are talking about, but your problema are not so irrytating when you know how to avoid them. Most time im using my fighters controling them beside mathership and i just in a case calling them to help.
Reagrds
PS. If you want try using special fighter with 4 cloaking devices and stealth team mode, they effect stuck so most time enemies cant target them and pursue making them not touchable.
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