Eh, the Balkans aren't precisely a region which gets much coverage internationally, comparatively speaking. It was very different during the Yugoslav wars, but NeoGAF wasn't a thing at the time, not for years to come :-D .
That said, like with most anything which isn't in the focus of the public eye, it of course blows up all the quicker once exposed, so to say.
In the same vein though, nearly any country or people could be portrayed antagonistically. I don't really see the conflict between Spanish Conquistadores and native Americans in games, yet this offers a rich and engaging, and yes, potentially controversial template to work from. Of course this wouldn't be applicable in modern times, but yeah. So use Nazi remnants, or Red Khmer in such a role - doesn't have any more reasoning to it than Balkan terrorists, but yay for diversity.
In any case, sit back, relax and have a glass of Julika- it's a game, not a super accurate represantation of current day Balkan folks.
You can substitute livovic if you need to mellow out more :-D .
I like how the accent on the S sticks out over the spoiler text.