An orange alert has been issued in three districts - Kozhikode, Kannur and Kasaragod - for June 15 and 16.
The rain will continue till Thursday, according to the India Meteorological Department.
The Met department said that Kerala is likely to get widespread showers from June 11.
Paddy is the main kharif crop, the sowing of which has begun with the onset of the Southwest monsoon. The Met Department has projected a normal monsoon for the June-September period.
Local train services from Mumbai's Chhatrapati Shivaji Maharaj Terminus (CSMT) to neighboring Thane and Vashi in Navi Mumbai were suspended due to water-logging on some railway tracks.
Every year, the monsoon schedule of trains would be in force till October 31 on the Konkan route.
Ramesh Chand said that India's policies on subsidy, price and technology have remained too much in favour of rice, wheat and sugarcane, and there is need to make the procurement and minimum support price policy favourable to pulses.
Dampness results in peeling paint, mould, fungus, leakage and making the home look sticky and if ignored it could do serious damage to the walls and structure of the house.
According to the satellite imagery, there is an increase in cloudiness over the Kerala coast and adjoining the southeast Arabian Sea.
Monsoon's four-month sojourn in India accounts for 80 per cent of the country's rainfall. It is crucial for farming and replenishing the reservoirs and the groundwater table.