Two women died in Homa Bay when they were swept away by floods while over 1,000 people lost their homes after the Sondu-Miriu River burst its banks on Friday.
Ms Isca Mwai Abuya and her aunt Ms Elizabeth Apiyo were swept away by a swollen Akech Saka River.
The Sondu-Miriu flood waters in Rachuonyo North District swept crops, houses and toilets into Lake Victoria.
The homeless families are camping at two schools, disrupting learning.
Former Rachuonyo council official Okuta Ogot appealed for food, mosquito nets and tents so that the displaced could leave the schools.
Among the affected was an internally displaced person, Mr Orinda Ndege, who lost 11 family members in Naivasha in post-election violence.
Meanwhile, hundreds more could be made homeless after experts warned that River Nzoia might break its banks in seven days .
The Meteorological Department said this was possible if rains persist in Mt Elgon and Cherengani Hills.
Rains have triggered flash floods in parts of Nyanza and landslides in Marakwet, Nyeri and Murang’a.
The floods have caused the deaths of more than 60 people, including 15 who perished in the landslides in Marakwet and Murang’a.
Another 20,000 people are at risk of being displaced by the floods.
Already, the trouble-prone zones of Budalang’i, Tana and Athi deltas are flooded and a continued downpour spells doom for people living in these areas.
Reports by Maurice Kaluoch , Otieno Owida and Walter Menya