Muslims are 88% of the Indonesian population. And the Indonesions were not originally Muslim.
I’m not sure I see your point, the article implies that Islamic fundamentalists have “taken over” Indonesia, this is balderdash. Yes Islam (a rather milk and water version of Islam compared to their brethren in the Arabian peninsula) became the majority religion of the population of the Malay archipelago seven or eight hundred years ago but this isn’t remotely the same thing as saying that the modern day state of the Republic of Indonesia is in some way an Islamic state, it isn’t, not remotely.
As for your assertion that Indonesians were not originally Muslim, well since the state of Indonesia was founded in 1945 a majority of its citizens have been Muslim. If you mean the peoples of Java, Sumatera, and Borneo weren’t originally Muslim you are correct but then I’ve got news for you the peoples of any country weren’t originally any religion, the Poles weren’t “originally” Catholic, the Chinese weren’t “originally” Buddhist and the Swedes weren’t “originally” Lutheran so I don’t see what relevance this is to the article.