Well in India/Pakistan and Cyprus, the fact that British colonialism played one community against the other, surely contributed to the outcomes? I note Turkey enthusiastically ethnically cleansed Alexandretta of (muslim) Arabs, and has killed (moslem) Kurds in the past 20 years in shocking numbers.  

The Christian exodus out of Iraq was precipitated by the acts of a Very Christian Nation. In the Levant Christian communities are doing well enough, while you forgot to mention Albania where nationality trumps religious differences (and in fact the Albanians are the least religious people in the Balkans it seems). Also, in Turkey the secular Christian communities were less wiped out because of their religion and more because of their ethnicity (in fact the population exchanges of 1923 made sure there were but a few Moslems in Greece and but a few Orthodox Christians in Turkey - sometimes despite the fact that the exchangees didn't know a word of the language of the country they were being sent to).

But, as far as nationalist/religious dumbwittery is concerned, over here in EU Greece we may not have had any wars lately, but Serbs are a model of secular humanism and national moderation compared to a large percentage of my compatriots who (for example), just this month, were polled as opposing acceptance of any name for our northern neighbor that contains the term Macedonia or any derivatives, something like 70-30, and where the Church of Greece is very political and very bloody rich - thus influencing politics, society and policy to an extent, I'd bet, that poor Patriarch Pavle never dreamed of. So "enshrining cultural heritage above realpolitik" is not new and its not foreign to the EU - heck we own the franchise...!

The road of excess leads to the palace of wisdom - William Blake