On 10 November 1684 in the Castle of Racconigi, Emmanuel Philibert, by now in his fifties, married Maria Angela Caterina d'Este, the beautiful daughter of the late General Borso d'Este, marquis of Scandiano, the collateral branch of the duchy of Modena, and Ippolita d'Este.
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He also commissioned major renovations to the castle of Racconigi.
He also painted a Hagar in Desert and altarpieces for churches in Turin, Savigliano, Racconigi, and Alessandria.