Because Connor is fighting a completely different war (one against the Templars) than the combatants around him, some of his enemies happen to be dressed in blue ratherthan red.
Olmert was both politically and ideologically committed to the Left's belief that wars are unwinnable and consequently enemies need to be appeased ratherthan defeated.
But even if that were so, the Turks think the Americans should have dealt with the matter through diplomatic channels ratherthan treat the Turkish soldiers as if they were enemies.
But I still find that learning moves, figuring out which weapons and combos work on specific enemies, and taking time to approach each fight with a bit of strategy ratherthan just button-mashing actually pays off quite a bit.