The man began to have seizures on the flight bound for Japan’s Narita International Airport.
Not long into the plane’s journey from Mexico City pilots were forced to make an emergency landing in Mexico’s Sonora state in the north of the country.
The man, named as Udo N, had caught a connecting flight from Colombian capital Bogota, when he died of a swelling of the brain caused by a drug overdose.
Paramedics boarded the plane once it landed at the airport in Hermosillo, but it was too late.
The bags were found in his stomach and intestines.
During the autopsy 246 bags, measuring 2.5cm long and 1cm wide, were found in the 42-year-old’s stomach and intestines.
Following the emergency landing the 198 passengers still on the flight were able to complete their journey.
Although prices fluctuate and differ from region to region, a kilo of cocaine costs around 190 times more in Japan than in Mexico.
In Mexico a kilo of the drug will fetch between $1,500 (£1,184) compared to $269,000 (£229,000) in Japan.
Transporting narcotics inside human ‘drug mules’ is a common smuggling technique used by drug cartels.