The ship, so far linked to 21 coronavirus deaths and up to 600 infections across Australia, was led out of the Wollongong port about 4.30pm on Thursday, bearing a banner with the words: "Thank you Illawarra."

Crew were cheering and clapping as the ship pulled away from dock, farewelled by a large crowd of locals.

Marine Traffic data indicates the Ruby Princess is bound for Manila in the Philippines.

Earlier on Thursday, NSW Police Deputy Commissioner Gary Worboys told reporters about 500 crew members remained on board.

Police say 368 Filipino nationals disembarked the ship on Thursday.

Of this group, 11 crew members who tested positive to COVID-19 were taken to hotels managed by NSW Health to enter quarantine and the rest were due to fly to the Philippines on Thursday evening.

A total of 542 crew members have disembarked over the past three days to be repatriated to their home countries.

Earlier, NSW chief health officer Dr Kerry Chant said health authorities have been working with the Australian Border Force, police, Aspen Medical, and the ship's medical crew, and was confident the on-board coronavirus outbreak was under control.

"The ship is now in a position to set sail," she told reporters.

Cruise operator Carnival Australia said the priority has been to ensure the health of the crew on board was stable before the ship departed.

The ship is the subject of a police investigation and commission of inquiry after its 2700 passengers were allowed to disembark despite signs of coronavirus on board when it returned to Sydney on March 19 from an 11 day cruise to New Zealand.

After the passengers left the boat before coronavirus tests were returned, many travelled home to all parts of Australia, taking the virus with them.

After sitting idle in Sydney for three weeks with hundreds of crew on board, the Ruby Princess was then exiled to Port Kembla.

Australian Associated Press