In the Edo period, Taiseki-ji Temple was allowed to have dokureiseki (privilege to meet shogun face to face) at Edo-jo Castle, and Hiyori the twenty fifth, a grandchild of Emperor Gomizunoo, was adopted as the son of Hiroko KONOE, the lawful wife of the sixth Shogun Ienobu TOKUGAWA, and he was respected by the Imperial family, court nobles, the shogunate families and daimyo family (feudal lord family); however, there was strict control over missionary work by Edo bakufu, the same as for other religious schools, and there was continuous religious persecution in many places such as Kaga clan, Sendai clan, Ii and Owari clan, and Hachinohe clan, and so on.
江戸時代、大石寺は江戸城では独礼席を許され、また第25世の日宥は後水尾天皇の皇孫であり第6代将軍徳川家宣正室の近衛熙子の猶子（養子）に迎えられている他、皇室や公家・将軍家や大名家などの崇敬を得たが、他の宗派と同様に布教活動は江戸幕府の厳しい統制を受け続け、加賀藩・仙台藩・伊那・尾張藩・八戸藩などの各地では法難が続発した。