The virus has killed nearly 6.5 million people and infected 606 million, roiling global economies and overwhelming healthcare systems.
Undersecretary Vergeire said the government should not rush into easing restrictions that protect the public from Covid-19.
According to Health Minister Khairy Jamaluddin, the updated vaccines would be made available only to high-risk groups.
Since the first locally transmitted case was reported early last week, Beijing has reported a total of 96 cases from three schools.
With the number of coronavirus cases on a downward trend, the government wants to ramp up efforts to normalise economic and social activities.
Experts said the return of seasonal viruses could make it more difficult to sort out Covid-19 patients from those infected with seasonal flu because many symptoms overlap.
“We have to monitor the situation further to see whether it is really stabilising or if there will be a surge,” Chuang Shuk-kwan of the Centre for Health Protection said.
Press Secretary Trixie Cruz-Angeles said the extra time is for indemnification, among others, for the health care workers.
The immunocompromised, senior citizens, and those who are not fully vaccinated against Covid-19 are still “strongly encouraged” to continue wearing face masks.
The tally on September 11 marked a sharp decrease from the previous day's 42,724 amid the Korean fall harvest celebration, and was also the lowest daily count since July 18.