A 73-year-old fisherman died near Genoa in northern Italy while in the neighbouring Piedmont region rescuers on Saturday found the body of a 70-year-old man, Sergio Biamino.
Biamino had gone to look for his horses and had been missing since Friday, when his son raised the alarm.
Two elderly men were also reported missing in the south on the island of Sicily. One of them is a farmer in his sixties in the Agrigente region, where the local union has warned that the storms could lead to the loss of half of the citrus crop.
While the rains have stopped in most of the country, authorities maintained the maximum red alert on Saturday in the southern Calabria region and in parts of Lombardy and Emilia-Romagna in the north.
By Sunday, recovery efforts were underway. The president of the Piedmont region, Sergio Chiamparino, said: "There has been a lot, a huge amount, of material damage. We can't cite figures yet but the costs will be very high."
In the regions most affected by the storms, several hundred people had to be evacuated from their homes and many roads, schools and businesses were closed across northwestern Piedmont and Liguria as the River Po and its tributaries burst their banks in numerous places.