If it's the one where you have to destroy those two installations in the asteroid belt and fighters are rigged to look like rocks, I just went "screw it" and shot at the capship's weapon systems BEFORE it powered up (that way, your heavy wing can insta-kill that carrier and you don't have to worry much more).
I don't know how else to say it. WCS doesn't have time compression (making each mission at least fifteen minutes long), therefore, if you really want to skip (I haven't died enough to test this), setting the difficulty to high and killing yourself five times seems to be the only option I can think up.