The cruise had arrived in Goa from Mumbai.
The cruise liner, where the NCB busted a high-profile rave party in October last year, was carrying hordes of New Year revellers.
A medical team in PPE kits came on board to conduct RT-PCR tests of the passengers and crew members.
Officials had instructed that no one should disembark from the ship before the result of the RT-PCR test was declared.
2,000 stuck on Mumbai-Goa cruise after crew tests Covid positive
The liner is anchored close to Mormugao Port cruise terminal.