Those still unaccounted for include 311 from the southern village of Hsiaolin, the National Fire Agency said.
At least 45 people were injured as the typhoon lashed the island with a record three metres (118 inches) of rain, submerging houses and streets and destroying bridges.
President Ma Ying-jeou, whose popularity has sunk to an all-time low since the typhoon over his administration's slow response to the disaster, has said the death toll could exceed 500, with hundreds buried.
