- Someone to Believe prod. by Joe Barresi
- Sorrow by Vitamin String Quartet
- Sorrow (Acoustic) prod. by Joe Barresi
- Sowing the Seeds of Utopia prod. by Alex Perialas & Ronnie Kimball
- Spirit Shine prod. by Ric Ocasek
- Strange Denial prod. by Alex Perialas
- Submission Complete prod. by Joe Barresi
- The Approach prod. by Brett Gurewitz, Carlos de la Garza & Greg Graffin
- The Biggest Killer in American Histroy
- The Day That the Earth Stalled prod. by Joe Barresi
- The Day the Earth Stalled
- The Dichotomy prod. by Brett Gurewitz & Greg Graffin
- The Dodo (Ithaca Session)
- The Fast Life prod. by Todd Rundgren
- The Grand Delusion prod. by Joe Barresi
- The Hopeless Housewife prod. by Todd Rundgren
- The Lie prod. by Brett Gurewitz & Greg Graffin
- There Will Be a Way prod. by Todd Rundgren
- The Same Person prod. by Alex Perialas & Ronnie Kimball