The automaker's plants and production lines in Japan are scheduled to operate normally for the first time in seven months.
Toyota had been aiming for a high February production plan to meet strong demand.
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.
Toyota now sees output at 850,000 in September and only 800,000 in October,
The comment comes after the automaker said a parts shortages would cost it 14,000 vehicles in lost production in December.
Toyota still faces a chip shortage, but the situation has improved from 12 months ago when COVID cases were causing factory shutdowns that led to a lack of parts.
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.
Toyota said domestic production fell in July, outweighing record overseas production that was driven by a strong recovery in Europe, China and the rest of Asia.
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.
Toyota's overseas output climbed 5.6 percent to 3.35 million vehicles through June, while production in Japan fell 18 percent to 1.73 million.
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 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.
Honda blamed delays in receiving parts and logistics due to COVID-19 and semiconductor shortages for the reduced output at two domestic plants.
Plants that build the Civic, CR-V, Honda e, Jazz/Fit and HR-V will be affected by output cuts.
Toyota said heavy rains, especially in its home prefecture of Aichi in central Japan, impacted procurement of parts and will force it to stop production at a total of three lines in two domestic factories.
The production upgrades at the Hofu H2 assembly plant in western Japan will underpin upcoming production of new vehicles.
Toyota's global production plan for June stands at about 850,000 vehicles, a cut of about 100,000 vehicles.
Toyota's move to convert Japanese engine plants to build batteries is part of a wider $5.6 billion investment aimed at increasing battery capacity worldwide.