Takahashi was originally assigned to the 2008 Cup of China and the 2008 NHK Trophy for the 2008–09 Grand Prix season. He had to withdraw after suffering a torn ACL in his right knee on October 31, 2008, only a few days before his first event. It was later reported that Takahashi would undergo surgery to repair ligament damage and his right meniscus and would miss the entire 2008–09 season. A bolt was inserted into his right knee. He was able to return to the ice in April and began practicing jumps in June.