SecureNT says two women aged in their 60s and 70s have died with the virus along with a man in his 60s.
There have now been 26 virus-related deaths in the region since the start of the pandemic.
The Territory also reported another 559 infections on Thursday.
There are 48 people in hospital with the virus including two in intensive care.
The number of active cases stands at 3833.
The figures came as the Northern Land Council said biosecurity zones imposed by the federal government, which restricted the movement of people between communities, had worked.
The restrictions will not be enforced from Friday.
Council chair Samuel Bush-Blanasi said traditional owners and community members had wanted to slow down the spread of the virus to give more people a chance to get their second and third vaccine doses.
"The biosecurity zones helped slow things down. They've done their job," he said.
But Mr Bush-Blanasi cautioned against complacency with COVID-19 "still out there".
"We need to prepare for the next wave because COVID is not going away," he said.
"That means everyone getting all their jabs and making sure our kids from five years old and up also get fully vaccinated."
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