Heres an excerpt from a walkthrough seems fairly detailed.
--> III-m. Sneaking SWT01M
-------------------------------------------------------------------------------
Recommended Loadout
~~~~~~~~~~~~~~~~~~~
-[ Angelwing ]-
Swap your Layer Shield for a Jamming Shield, swap 1x Electron Cell for 1x
Plasma Cell
For this mission, we only have the Angelwing. We also have the ability to cloak
now for short periods of time (5 minutes). There is one drawback, and that is
after every 5 minutes of cloak, we must de-cloak for 30 seconds for the cloak
to recharge. We have a total of 30 minutes to complete this mission.
This mission is all about stealth. Don't worry, if you hate stealth, it's not
that bad at all, trust me. If you like stealth, well then, have fun!
Some things to note while we're cloaked. We're not totally undetectable. If we
get too close to an enemy ship, they'll detect us and it's mission failed. If
we de-cloak within the line of sight of one of the sensors, the base or an
enemy ship, they'll spot us and it's mission failed. While cloaked, we use our
newly installed Stealth Drive. This drive is virtually undetectable, however
it's very slow. Finally, while cloaked, we have no shields.
With all that out of the way, we can start. If you really like stealth
missions, this one is somewhat simplistic, but you can have fun with it. I'm
going to tell you the one route I know that works perfectly. There are several
routes you can take to the base, feel free to experiment, if you wish.
As soon as you have control, have the Angelwing go to Nav 0. When you get close
to Nav 0, Miss... ahem, Commander Swee****er will inform us she has some
detailed information on this area, and a bunch of Nav points and other crap
will show up. Now quickly head directly to Nav Point 3.
Angel should tell you that Asteroid #3 has lots of radiation and it's perfect
cover. Well she's right, and that's why we're going there. Once you get in
range you will be informed that you've entered the radiation field and your
cloak will automatically drop. This is okay, we're in the radiation field and
we can't be spotted. The cloak timer will now count down from 30 seconds, this
is the recharge time. When time timer has 15 seconds left, move to Nav Point 7.
Once you clear the radiation, you will re-cloak automatically.
Once you're close enough to Nav Point 7, your cloak will drop again. Wait until
the timer has 15 seconds left, then move to the Theta Base. As soon as the
cloak comes back up, set your engine power to 200%.
Now pay attention to the dialog! When you are told you're close enough to the
base hit the Hold Position button (F3)! If you get too close, the base will
detect you and it's mission failed!! Once you hold position, select your
commandos and send them at the base. You should have about 1:50 left on the
cloak timer. When the commandos get to the base, the timer disappears and you
get a cutscene.
Heh heh. Ships go BOOM! Heh. Er.. right okay but there's some left. Great. Oh
wait, what's that? Some Ghost ships were here?! Damn that Swee****er...
Now, set engines back to normal power and set your shields to 200%. The Ghost
ships only have anti-device weapons, but their weapons will also do some hull
damage. Start with the smaller or weakest ships and pound them to oblivion.
Once they're all dead...
MISSION COMPLETE!