Like studio Sunrise, where some of its founders previously worked, Bones is divided into smaller studios which are focused on their own anime projects.
His previous works as designer consist of Angelic Layer, Scrapped Princess, and Darker than Black. Komori is well known as a character designer and animator who has been with the studio since its inception. Since the death of Ōsaka, two new additions have been made to the studio's board of directors: Makoto Watanabe and Takahiro Komori. Ōsaka had been battling with cancer, and died from the disease on September 24, 2007. In 2007, the studio suffered the loss of co-founder Hiroshi Ōsaka, well known for his works as character designer on series such as Mobile Suit Victory Gundam, Mobile Fighter G Gundam and The Mars Daybreak.
One of their first projects was collaborating with Sunrise on Cowboy Bebop: Knockin' on Heaven's Door, a feature film based on the Cowboy Bebop anime series. Bones was founded by Sunrise staff members Masahiko Minami, Hiroshi Ōsaka and Toshihiro Kawamoto in October 1998.