Kaju-ji Temple prospered as a Monzeki Temple served by Cloistered Imperial Princes but was destroyed by fire in a conflict that took place in 1470 and went into decline before being restored with the aid of the Tokugawa clan and Imperial family during the Edo period.
代々法親王が入寺する宮門跡寺院として栄えたが、1470年（文明(日本)2年）兵火で焼失して衰退し、江戸時代に入って徳川氏と皇室の援助により復興された。