In India, there has long been discrimination against what is considered the lowest class in Hinduism, the Dalits, or untouchables, as well as sectarian and religious violence. Although it has been outlawed by the Indian Constitution, the caste system was a way to structure inequality into the system itself. And while outlawed, the social barriers it creates is still prevalent in rural areas where most Indians live. It also features in the view of Hindu extremists and traditionalists.
At various times, there have also been tensions between different religious groups, such as Hindus and Muslims with both sides having their fair share of extremists. While this is not racism, technically — as people of all classes are of the same race — the prejudice that had come with the caste system is quite similar to what is seen with racism.
In Cambodia, there has been a strong anti-Vietnamese sentiment.
As noted by Wikipedia in an article on racism, “until 2003, Malaysia enforced discriminatory laws limiting access to university education for Chinese students who are citizens by birth of Malaysia, and many other laws explicitly favoring bumiputras (Malays) remain in force.”
In Indonesia there has been a lot of violence against the affluent Chinese population who have been blamed for economic problems that have plagued the country in recent years.