The automaker's plants and production lines in Japan are scheduled to operate normally for the first time in seven months.
The sweeping shutdowns, which begin in August and run through the end of September, will hammer Toyota output in every major market -- Japan, the U.S., Europe, China and Asia.
Toyota had been aiming for a high February production plan to meet strong demand.
Automakers have already had to cut production because of difficulties finding semiconductors and other components as the pandemic disrupts manufacturing around the world.
The automaker said parts such as semiconductors and wire harnesses are in short supply because of bottlenecks triggered by lockdowns in southeast Asia.
A spike in infections has forced governments in Asia to impose fresh lockdowns and curbs, which are causing disruptions in parts supply across the region, adding to a global chip shortage.
The automaker will reduce output again in November, but the impact will not be as painful as before and Toyota sees signs of recovery on the horizon.
The three-day suspension is likely to mean a production fall of 3,500 vehicles.
The automaker has asked suppliers to make up for lost output so it can build an additional 97,000 vehicles between December and the end of March, Reuters reported.
The comment comes after the automaker said a parts shortages would cost it 14,000 vehicles in lost production in December.
The quake triggered a tsunami, caused blackouts as far away as Tokyo, derailed the country's famed bullet train and buckled highways that serve as critical supply arteries.
The latest stoppages will bring lost output to 9,000 vehicles, the automaker said, and affect production of Lexus models and the Land Cruiser.
The attack comes just after Japan joined Western allies in clamping down on Russia due to its invasion of Ukraine.
Toyota said it would slash its global production plan for April by 150,000 units to 750,000 vehicles, compared with the original schedule reported to suppliers earlier this year.
The planned four-day halt to production at a Tsutsumi factory line, which makes Camry and Corolla models, will cut vehicle output by as many as 1,500 vehicles.
The latest January suspensions hit 19 lines at 11 plants in Japan, out of a total of 28 lines in 14 plants.
The Nissan Z car, a 400-hp, twin-turbo symbol of the struggling Japanese automaker's revival, is the latest product launch to be derailed by global supply chain woes.
The automaker expects the impact to extend beyond this month and said production in early October will also fall short of initial expectations.
The stoppages affect output of Lexus models and the Toyota Land Cruiser as the automaker runs short of components from plants in Southeast Asia where production has been disrupted.
Production lines will be switched back on at its 14 factories across the country, Toyota said.
The factory makes the electric Model 3 sedans and Model Y crossovers for domestic and international markets, including Germany and Japan.
Toyota's global production plan for June stands at about 850,000 vehicles, a cut of about 100,000 vehicles.
The production upgrades at the Hofu H2 assembly plant in western Japan will underpin upcoming production of new vehicles.
Mazda will suspend production at its two domestic factories for two days in April as factors including a rise in COVID-19 cases in China cause supply disruptions.
EV production should account for about 40 to 50 percent of Honda's total output in North America in 2030, or around 800,000 battery-electric vehicles.