And the death toll is expected to rise as the authorities receive the first reports of likely floods and landslides in the more remote villages of the Himalayan state.
Rescue workers recovered 14 bodies overnight from two buses headed to the capital Kathmandu that were buried in a landslide on a highway near the city.
At least one other bus and other vehicles were still buried at the same spot, and rescue workers were digging through rocks and mud trying to find people.
At least 34 people were killed in Kathmandu, which was the hardest hit by Saturday’s flooding.
By Sunday morning the weather in Nepal had improved, which helped recovery and clean-up efforts get underway. Police officers and soldiers were assisting with rescue efforts, while heavy equipment was used to clear the landslides from the roads.
Kathmandu however was still cut off as the main highways out of the city remained blocked by landslides. Three highways, including the key Prithvi highway that connects Kathmandu to the rest of the country, have been blocked by landslides.
Residents in the southern part of the city, which was inundated by water, were cleaning up their houses as water levels began to recede.
The government announced it was closing schools and colleges across Nepal for the next three days.
The heavy rains, which started on Friday, slowed on Saturday night, but were expected to continue through the weekend.
Last week, the government issued flood warnings across the Himalayan nation warning of massive rainfall. Buses were banned from traveling at night on highways and people were discouraged from driving cars.
The monsoon season began in June and usually ends by mid-September.