- Awaken the Master prod. by John Petrucci
- Bad
- Barstool Warrior prod. by John Petrucci
- Barstool Warrior (Live in Berlin, 2019) prod. by John Petrucci
- Battery prod. by John Petrucci & Mike Portnoy
- Battery (Live in Barcelona, 2002) prod. by John Petrucci
- Begin Again prod. by John Petrucci
- Behind the Veil prod. by John Petrucci
- Beneath the Surface prod. by John Petrucci
- Beneath the Surface (instrumental) prod. by John Petrucci
- Beyond This Life prod. by John Petrucci & Mike Portnoy
- Beyond This Life [Scene Four] [DVD Version]
- Beyond This Life – Writing, Basic Tracks & Vocals (Unreleased)
- Blind Faith prod. by John Petrucci & Mike Portnoy
- Bombay Vindaloo - Improv. Jam Live at the The Marquee Club, London, April 23,1993
- Breaking All Illusions prod. by John Petrucci
- Breaking All Illusions (instrumental) prod. by John Petrucci
- Breaking All Illusions (Live at Budokan, 2017) prod. by John Petrucci
- Bridges in the Sky prod. by John Petrucci
- Bridges in the Sky (instrumental) prod. by John Petrucci