Of the 206 Japenese nationals evacuated from the Chinese city of Wuhan, four have been reported ill.
They will now undergo medical checks at a hospital designated for infectious diseases.
The remaining passengers will also under health checks before they are allowed to go home, officials added.
The first chartered flight from Wuhan, where the coronavirus was first detected, arrived in Tokyo on Wednesday.
So far, Japan has confirmed seven cases.
The death toll from the coronavirus, believed to have originated in a Wuhan market which illegally sold wildlife, rose sharply to 132 on Wednesday, with nearly 1,500 new cases.
Meanwhile, efforts are on to evacuate another 650 Japanese citizens, with Prime Minister Shinzo Abe setting up a special task force to deal with the epidemic.
US President Donald Trump has expanded a list of countries subject to a full travel ban on Tuesday, prohibiting citizens from an additional seven countries, including passports from Syria and Palestine, from entering the United States.
The alleged gunman shot dead by police during Sunday's attack on Australia's Bondi beach was originally from the southern Indian city of Hyderabad and his family did not know about his 'radical mindset', Indian police said on Tuesday.
TheĀ Israeli military have shot dead a 16-year-old Palestinian during a raid on the town of Tuqu' on Monday, the Palestinian health ministry said, the latest deadly incident in a recent surge of violence in theĀ Israeli-occupied West Bank.
US President Donald Trump has sued the BBC on Monday for defamation over edited clips of a speech that made it appear he directed supporters to storm the US Capitol, opening an international front in his fight against media coverage he deems untrue or unfair.
Four people are facing criminal charges in connection with what Attorney General Pam Bondi described on Monday as a foiled bomb plot that contemplated multiple targets, including US immigration agents and their vehicles.