Passengers disembarked the Sriwijaya Air flight, bound for Jakarta from Bengkulu on Sumatra Island, after complaining that the odour in the cabin would make flying unbearable.
The situation inside the cabin reportedly became so bad that passengers and crew nearly came "to blows", according to The Jakarta Post, citing a report from an Antara news reporter who was on the flight.
The durian fruit has been banned from public transport and hotels in some countries because of its "stinky" smell, which has been described by food writer Richard Sterling as "turpentine and onions, garnished with a gym sock".
An Indonesia flight, which ended up stinking to high heaven because it carried two tonnes of what has been branded the world's smelliest fruit, was delayed as passengers refused to travel with the odorous cargo.
Airline staff had claimed the smell would dissipate once the flight was in the air, but passengers refused to fly and deplaned.
The airline eventually gave in and unloaded the fragrant cargo.
Videos circulating online showed verbal altercations on the tarmac between disgruntled travellers and ground staff and the fruit finally being taken off the plane after the flight had been delayed for one hour.
Durian is considered a delicacy in many parts of Asia but it attracts a lot of negative attention thanks to its "raw sewage"-like smell".
'Three tonnes of durian offloaded from a Sriwijaya Air jet after pax complained of the smell.
Passenger Amir Zidane said, in a Facebook post, that he had flagged the issue with a member of the cabin crew.
"It's normal for every airline to carry durian during a flight as long as it is packaged properly and put inside the cargo hold in accordance with the standards and procedures", Kyodo News quoted Maya as saying in a statement.