Almost 100 people have been returned to their communities from Katherine so far under the government-funded "Return to Country" program.
While lacking a fixed end-date, Kalano Community Association CEO Bill Headley said that the program "must run quickly and efficiently" to protect Indigenous populations from coronavirus.
"I would hope that it's no more than a two-week program, the key here is to get in before a wider spread of COVID-19," he said.
"It's a moving feast at the moment, these people generally stay together so where transport is going day-to-day is changing constantly.
"Most people are getting on board, take this morning for example - we had a family with a young child. The family knew that the community environment is safer right now than it is here," Mr Headley said.
Not everybody, however, agrees.
Jilkminggan community member Candis Albert will be staying to care for her Mother in Katherine, and said that for many the communities just don't have the resources required.
"We need to stay here to look after my grandmother, she needs to be close to the hospital so she can't go into a community," Ms Albert said.
"About half of the people want to go, the other don't because they believe that it's safer here. The communities are far, people don't know what would happen if corona did get there so they don't want to go," she said.
Mr Headley said people are entitled to make their own choices.
"They are entitled to make their own decision, and will intelligently choose correctly based on the available information," he said.
"One issue we see is that when people aren't from Katherine, it means they are usually sleeping rough or in an overcrowded setting with a family member which is unsafe," he said.
More reading: Flying out to be with family.
As a rapid response to a dynamic situation, Mr Headley said that trips are being arranged as calls come in.
"It's a moving feast, these people generally stick together so where buses go when is changing constantly. People just need to get in touch with Kalano if they want to go," he said.
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