Work to stem the flow of water at a breach in the River Steeping in Wainfleet is currently about a "quarter completed", according to the fire service.
An RAF Chinook helicopter has been used to help the operation carrying ballast and sandbags to the site - an operation which carried on into the night.
Karl Foxall, watch manager with Lincolnshire Fire and Rescue Service, said: "That's going to commence again at 09:00 this morning.
"The water levels currently haven't changed but we have brought in four high-volume pumps and they're currently at Gibraltar Point."
The equivalent of two months' rain had fallen in the area in two days, according to Lincolnshire County Council.