In the Christian era Padenghe depended on the Parish of Desenzano and the first church, San Cassiano, was built next to the town center by the lake.

In 1154 Padenghe is mentioned in the document with which Frederick Barbarossa, after the Diet of Roncaglia, recognizes the rights of Theobald, Bishop of Verona on certain territories in province of Brescia.

In 1414 Pandolfo Malatesta, who was at the beginning of the century signore of Brescia, appointed Drugolo Castle (now in the territory of Lonato) to Padenghe removing it to the family Vimercati to punish rebellion.

The macaronic poet Teofilo Folengo, that at the beginning of 1500 stayed in the convent of Maguzzano, called the inhabitants of Padenghe "superb people", and the French, during their rule, had to be afraid of it, though in 1509 the governor ordered the demolition of the castle, avoided by the intervention of Cardinal D'Amboise.

In 1532 Padenghe and other municipalities gravitating around the lower lake at Desenzano, which formed the Quadra di Campagna, they asked, not obtain it, independence from Salò, where the riviera was headed.

During the Italian Resurgence was at Padenghe that the volunteers of Tito Speri took him prisoner, on 28 March 1848, the Austrian general Schonhals, fleeing insurgent Brescia.