Disaster agency spokesman Sutopo Purwo Nugroho said in total, eight global flights to Bali and 13 worldwide flights departing from Bali were cancelled.
The first eruption came around 5:30 p.m. local time (4:30 a.m. ET) Saturday, Bali's Regional Disaster Management Agency said.
"As a result we have cancelled flights to and from Bali this evening".
Satellite imagery Sunday showed the volcanic ash drifting east and southeastward towards Lombok Island.
GettyBalinese Hindus take part in a ceremony, where they pray near Mount Agung in hope of preventing a volcanic eruption, in Muntig village of the Kubu sub-district in Karangasem Regency on Indonesia's resort island of Bali on November 26.
Authorities maintain the resort island remained safe, despite several airlines cancelling flights over safety concerns.
About 25,000 people are thought to still be in temporary shelters after more than 140,000 people fled earlier this year after increased volcanic activity prompted fears a major eruption was imminent.
The latest eruption is significantly stronger than last Tuesday's eruption, with a cloud of steam and pulverised rock driven at least 1,500 metres above the volcano's 3,000-metre peak.
Bali is main tourist destination of Indonesia with a monthly flow of some 200,000 foreign tourists, according to official data.
It told people within a 7.5km exclusion zone to "immediately evacuate" in an "orderly and calm manner".
Under these circumstances, Garuda Indonesia enforces exemption policy for cancellation fee, rebooking/reroute fee, refund fee, administration fee and other ticket change fees for passengers who have scheduled flights to and from Lombok.
Most of the islanders outside of the immediate exclusion zone were ordered to return home at the end of September, and the mountain has been intermittently rumbling since.
Indonesia sits on the Pacific "Ring of Fire" where tectonic plates collide, causing frequent seismic and volcanic activity.