Among the worst hit was Ravensworth, North Yorkshire, which had 89mm (3.5in) in 24 hours and more than 100mm (4in) since Sunday. Northern Ireland has also seen heavy rain.
The Met Office said many places have had between 50mm and 70mm (2in to 2.8in) in the past 48 hours.
Heavy rain and strong winds are forecast to return to some southern areas with 20mm to 40mm (0.8in to 1.6in) likely in places into tomorrow.
The Environment Agency had issued 83 flood warnings for potential river flooding, and almost 150 less serious flood alerts.
The agency warned that river levels will continue to rise through Tuesday and Wednesday along the River Ouse in Yorkshire and the River Severn, which could cause further flooding as the water moves downstream.