The only thing that's left for Thalyssa is finding the way in - and that's impossible without a fight or two. From what she told me, they now have the level 25 and up Pirates on patrols, so beating up the fodders will do us no good. Try sneaking past them and gather as much intel on the ship as you can, and if push comes to shove, just show them who's the boss.
You may have went a little bit over the top. What part of spying and using force only if necessary, don't you understand?
Too late now. *sigh* So there are no secret entrances, that won't help Thalyssa or Tuna one bit. I'm not sure I can be of any more service right now, you'd better ask her what to do next.