A method for producing a 1,3-dioxan-4,6-dione compound from a ketone compound and a malonic acid, the method comprising: precipitating a 1,3-dioxan-4,6-dione compound as a crystal from a mixed solvent comprising a first organic solvent having a dielectric constant of 10 or more and a water, so as to form a precipitated 1,3-dioxan-4,6-dione compound; and isolating the precipitated 1,3-dioxan-4,6-dione compound by a solid-liquid separation.