India has reported more than 300,000 daily cases for the last three weeks, overwhelming its health system.
There are about 9,000 Australian citizens and permanent residents in India seeking flights home.
It is not yet clear if authorities had a stand-by list of passengers for the rest of the almost 9,000 Australians and permanent residents looking to get home from Covid-ravaged India.
The government later made it a formal crime for anyone to attempt the trip, punishable with a $66,000 fine.
The flight is due to leave New Delhi on Friday night and scheduled to touch down in Darwin on Saturday morning after 9am, where passengers will be whisked away to an old mining camp at Howard Springs to undergo two weeks of quarantine.
The PM said it would first target the 900 "most vulnerable" Australians stuck in India.
Prime Minister Scott Morrison said the controversial weeks-long pause in travel from India had worked, with active cases in hotel quarantine dropping more than 40 per cent over the past few weeks. It has also carried life-saving oxygen equipment to India to support its Covid-19 response, she said.
The move to stop repatriating expats in India was a blow to the more than 9,000 in the country who are registered with the Department of Foreign Affairs and Trade as wanting to return.
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NM lifts mask mandate for fully vaccinated individuals
Half the states had mask requirements in place for most indoor spaces when the CDC issued its recommendations. Roughy 36% of people in the US are fully vaccinated and have received CDC-issued vaccine cards as proof.
Ontario stay-at-home order extended to June 2
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