Palestinian health official Ashraf al-Kidra says the man's body was discovered early Sunday.
It was not immediately clear whether he was a civilian or militant.
His death brings to six the number of Palestinians killed in Israeli strikes since Palestinian militants fired an anti-tank missile at an Israeli jeep patrolling the border with Gaza on Saturday.
Overnight, the Israeli military said, its aircraft struck a weapons manufacturing facility, three weapon storage facilities and two rocket launching sites.
Some three dozen rockets and mortar rounds have hit Israeli since late Saturday, causing no injuries or serious damage.