In February of 1527, Kyoto was invaded by Takaharu YANAGIMOTO and Motonaga MIYOSHI, and Takakuni's force fought in the Battle of Katsuragawa; however, the Takakuni side was defeated and thus had no choice but to escape to Omi-Sakamoto supporting Yoshiharu ASHIKAGA.
大永7年（1527年）2月には逆に柳本賢治や三好元長らに京都に侵攻され、桂川で迎撃したが敗れ、足利義晴を擁して近江坂本に逃れた（桂川の戦い）。