With the Middle East in turmoil and waves of violent outbreaks in Egypt and Syria, particularly against religious minorities in the latter, the international community tends to turn a blind eye to the rise of religious intolerance in Southeast Asia. Yet, the persistence of religious intolerance in the Asia-Pacific region has given rise to concerns in more than one way: whereas religiously-motivated discrimination not only poses a serious threat to the universal right to freedom of religion, it has also led to a rise in sectarian violence with troubling repercussions. At the heart of the matter lies Indonesia, the country which is known for its successful transition from dictatorship to democracy, but even more so for its philosophy of “Unity in Diversity”. Growing unease among the Muslim-majority population regarding the country’s religious minorities and the specific targeting of those minorities, supported by certain discriminating laws and policies, have paved the way toward what can be described as a ‘mainstream of intolerance’. Unfortunately, intolerance and violence against religious minorities, including Christians, Shias and the Ahamidya, in Indonesia has set off a chain reaction of violence – particularly in Myanmar where Buddhist ‘extremists’ have incited a spate of attacks against the country’s Muslim minority. In case both national governments do not find an adequate and effective response to the rise of religious intolerance, including a change of social attitude, their standing in the region, as well as worldwide, might be in serious peril.