The official dinner on Wednesday evening is one of the showpiece moments of the prince's nine-day goodwill visit to France.
Macron and Naruhito first attended a theater performance together at the sumptuous palace west of Paris.
The 58-year-old prince will inherit Japan's Chrysanthemum throne when his 84-year-old father, Emperor Akihito, abdicates next year.
Naruhito's trip marks 160 years of diplomatic relations between France and Japan.
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