The black & white music video for "Hexagram" shows excited fans entering a building to watch a live performance of the song. As such, the majority of the video focuses on this performance, with small exceptions like a shirtless, incapacitated Moreno lying on the floor during the moody bridge. Audio for the video is entirely off the studio recording until the very end which features live crowd noise. Many shots during intense screaming revolve around other band members, as such intense vocal performances would be impractical in an actual live setting.
In contrast to the single's minimal radio play, the "Hexagram" video found significant rotation on the more underground-oriented Headbangers Ball and Uranium in late 2003.