In 1606, Shin-mito was rebuilt by Hideyori TOYOTOMI as tahoto pagoda style (a two-storied pagoda (composed of a square lower story and a cylindrical upper story)) that still stands at the south of the temple and is also under the administration of the Imperial Household Agency as the Anrakujuin Temple tomb of the Emperor Konoe.
一方の新御塔は豊臣秀頼により慶長11年（1606年）多宝塔形式で再建されたものが寺の南側に現存し、近衛天皇安楽寿院南陵としてやはり宮内庁の管理下にある。