Another site worth looking at for exploring the topic in further detail. I used the word explore instead of argue, because the bottom line is religion, identity politics, governance, and economics all play a role. The only outliers are those who are attempting to dismiss the power of religion altogether.

http://www.center2000.org/northern-ireland/

Northern Ireland

Roman Catholics versus Protestants

Though many allege that this conflict and ensuing violence may not be the result of any single cause, there appears to be little doubt that if the emphasis on the religious-based differences has not been the cause, it has certainly contributed to and exacerbated an already difficult situation.
Actually his was mostly about political power, but religion is being leveraged.
In spite of the 2007 peace agreement serious tension remains between the Catholics and the Protestants. In early 2013 the Protestants hung out the English flag in vast numbers, a move which offended the Catholics. Violent demonstrations erupted. This was not the first time, nor probably the last, that that such actions would be on display. As the French are fond of saying: “the more things change, the more they remain the same”.
http://www.center2000.org/indonesia/

Indonesia

Christians versus Moslems

Until his demise, Suharto, the former president, had been able by sheer force, to repress these differences in this and throughout this nation of 13,000 islands. Until now, that is.

Today, the fear is that the violence in places like Ambon will spread. Already, one sees similar clashes in the resort island of Lombok, attacks on churches in Jogjakarta and rallies in the capital of Jakarta itself, where tens of thousands of Moslems enraged by accounts of violence against them, shout their readiness to die in a Moslem holy war.
As Strategic Forecasting wrote in its February 13, 2002, intelligence briefing, the so-called Indonesia Island Agreement recently signed won’t halt religious clashes, stating the “Rival Christian and Moslem factions in Indonesia’s Molucca Islands signed a peace agreement Feb. 12, 2002. But given the highly volatile conditions, there is little reason to believe the violence will end any time soon.”
This gets to my previous point, ultimately the religious leaders have to agree to stop the fighting, and this creates an opportunity for the government to help ensure the peace through better governance.