Everyone can have their opinion about war based on their experience. People who can say which tanks were "greater evil" (Which is the criteria for measuring evil?) or that games based on real events are pure fiction, fortunately for them, obviously don't have any real war experience at all.
But that doesn't bother me much. I'm passionate war gamer, and I really like to have choice of sides(i.e. Axis and Allies). This often adds additional depth to the game. IMHO, Call of Duty would be better with playable Axis in the single mode.
In this case it should be said that both sides used almost the same weaponry (tanks, guns, planes) and that it was not too
hard to implement other side into game.
Disclaimer: While set during a real-world conflict, this game is not intended as a political statement or to imply any support of the various factions involved. The Yugoslavian civil war has been, typically for civil wars, a bloody and violent struggle which left no side innocent, cost civilian lives on both sides, and in which there rarely was a “right” or “wrong” side.
But there obviously are "our" and "their" side. Or at least "sympatethic enough to portray in game" and "not sympatethic enough to portray in game" side. What more describes real attitude of developers in this case, words in disclaimer or content of the game, judge for yourself.