This is from a walkthrough a user on GameFAQs made:
¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯ 8.6 (2) Mission 6 Pt. 2: Remove and Disable ___________________________________________ ¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯
_______________ Enterprise Hull ¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯
Secrets: 0 Starships: 0
Go up the ladder and use the panel above to exit the airlock. You now have access to the Sniper Rifle. and you can use it if you like, but I've found that using the Compression Rifle's alternate fire is easier simply because the reload time of the Sniper Rifle is atrocious and you're being timed here.
Take your pick of which one to attack first, you'll have to get them all eventually. First take out the Idryll outside the forcefield, and then jump up and take care of the one(s) inside while in midair. Try and maneuver yourself so that you can take them out in the air and then fall down inside the forcefield. That saves you the time of an extra jump. Once you get up to one, use your Tricorder on it to knock it off the hull. Once you've gotten all three a cutscene starts.
This next part is one of the hardest in the game so SAVE! This mission is tough enough on Easy, it took me about 30 tries to beat it the first time I played, but it does get easier. However when I went to play it on the 'Normal' difficulty for this FAQ I found that the turret no longer moves up or down. This made barely passable mission nigh impossible. However, after more than a day of trying, I FINALLY beat it! :D
First four Idryll fighters zoom past. Don't bother taking out any of the fighters, more just warp in. After that the Capitol Ship passes over. You have to do this right, if you don't just reload your saved game and try again. When the capitol ship makes it's first pass directly overtop of you, fire two Alternate fire projectiles about one inch (on your computer screen) ahead of the center of the red target. If that doesn't work then reload and try again.
Once you see it blown off SAVE! If it's shields are flashing red your getting a good hit, if they're flashing blue your getting a bad hit, and if the don't flash at all then your missing. :P
Your fire can take out incoming projectiles, and you have to do just that non-stop. If you let more than a few missiles hit the Enterprise your dead. Keep defending until the Capitol Ship is in your sights and then let it have it with the primary fire. The alternate fire is just to slow to be really useful here. You should be able to get one, maybe two hits in per flyover. Assuming you get at least one or two hits per pass, it should take you four to five flyovers >EACH WAY< to take out all the key systems. Yup, a total of ten. I kid you not, ten. You have to take out almost all the oncoming missiles. I actually found that sometimes it's better to let the Capitol Ship pass over without even trying to hit it, rather than let projectiles hit the Enterprise.
If you repeatedly fail, don't let it get to you. Like I said, it took me countless tries to beat this level. I can't imagine it on any of the harder difficulties. :o
"It's much easier if you explicitly target the orange torpedoes from the capital ship. The white torpedoes from the fighters don't do much damage, but the orange ones really hurt. So that level becomes pretty easy to get through if you make sure to shoot any orange torpedoes but basically just ignore the fighters and white torpedoes."
When there is no capital ship, try to minimize the damage at the enterprise by still shooting the white torpedoes.
Like I said, you need to try this one often before it works..... It just somehow suddenly worked for me and it became easier for afterwards. I agree to save often, but only if you havent beaten it before. Try to not rely on the savegames too much, IMO.
I realize this is a long time to post here, but I've recently began playing this game again. Now that I finally have a computer that will actually play it with out doing a slide show and I also am stuck at this very same spot. After reading all three pages, I am dissappointed that Karen never followed up and let us know if she ever passed it , or if she used cheats to go around the mission, LOL!!!