Typhoon Goni, with 215 kph (133 miles) sustained winds and gusts of up to 265 kph (164 mph), will bring violent winds and strong rains, state weather and disaster officials said.
It is among the strongest typhoons to hit the Philippines since Haiyan, which killed more than 6,300 people in 2013.
“We are having a hard time with COVID-19, and then here comes another disaster,” Senator Christopher Go, the top aide of President Rodrigo Duterte, told a virtual news conference.
Local executives should ensure that the virus does not spread in evacuation centers, he said.
Officials have started pre-emptive evacuations, with Albay province bringing 794,000 residents to safety, Ricardo Jalad, executive director of the national disaster agency, told a news conference.
In the capital Manila and nearby Bulacan province, roughly 1,000 Covid-19 patients housed in large isolation tents could be transferred to hotels and hospitals, Jalad said.
The Philippines has the second highest Covid-19 infections and deaths in Southeast Asia, next only to Indonesia, with 380,729 cases and 7,221 deaths.
Typhoon Molave last week killed 22 people, mostly through drowning in provinces south of Manila, which is also in the projected path of Goni, the 18th tropical storm in the country.
The main island of Luzon accounts for more than two thirds of the economy, which fell into recession in the second quarter, and half of the population of more than 108 million.
Relief goods, heavy machinery and personal protective equipment are already positioned in key areas, Filipino Grace America, mayor of Infanta town in Quezon province, told DZBB radio. “But because of the Covid-19 pandemic, our funds for calamity concerns and expenses are insufficient.”
Local officials canceled port operations and barred fishers from setting sail. Airlines canceled dozens of flights.
Typhoon Goni, moving westward at 25 kph (15.5 mph) from the Pacific Ocean, will bring intense rains over the capital and 21 adjacent provinces early on Sunday, and threats of floods and landslides.
Another typhoon, Atsani, with 55 kph sustained winds and gusts of up to 70 kph, is gaining strength just outside the Philippines.
An average 20 typhoons, bringing heavy rains that trigger deadly landslides, hit the Philippines annually.