..and that's pretty much it right there isn't it?
In your own real life nations, no matter which you live in, do you not have people living there who disagree with your respective governments? (Especially self appointed governments) Are they "pirates" too?
People want realism in a game. This is another form of it. The way politics generally work here, as with most other games, is the biggest clan runs the show because they refuse to be told what to do by a smaller clan or else they won't join your coalition or whatever you choose to name it. Are they then labelled "pirates"? God forbid a smaller clan leaves the fold, or even worse...individual people leave several clans to form a new one of like-minded people. Isn't that what a clan is supposed to be? Or are they just "trouble makers"?
Like it or not doesn't matter. Just play your game and be happy you found it. If this all stresses you out so much maybe you should find something else to do. No need for all the drama.