Evacuation orders issued a day earlier for a quarter of a million people were lifted in most areas on Sunday as the rains subsided, allowing many people to return home.
But thousands remained cut off by landslides or fallen trees that blocked roads in mountainous areas.
More than 3,000 people have been left stranded in Yame, in Fukuoka Prefecture in southwestern Japan, where roads were cut off to seven districts.
The Japanese military airlifted food by helicopters to isolated areas.
Local officials raised the death toll from the torrential rains in the northern parts of the Kyushu region to 26 and six people remain missing in Kumamoto, Oita and Fukuoka prefectures.
Most of the victims were in their 70s and 80s.
The Japan Meteorological Agency said that the worst was over, but predicted more rain and thunderstorms in some areas today. Source