| The Best of Times · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JP7, 2009 spec) | Mesa/Boogie Mark IV (studio recording era, 2009) | 7.5 |
| Scene Two: I. Overture 1928 · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature (JP6, early model, likely with DiMarzio Steve's Special bridge and Air Norton neck pickups) | Mesa/Boogie Dual Rectifier (Rackmount, Revision F or G, as used by Petrucci in 1998-1999 studio sessions) | 7.5 |
| Pull Me Under · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature (JP6, early 1990s version) | Mesa/Boogie Mark IIC+ | 7.5 |
| Under a Glass Moon · solo | Solo · distorted | Ibanez JPM100 | Mesa/Boogie Mark IIC+ | 8 |
| Another Day · solo | Solo · distorted | Ibanez JPM100 (John Petrucci Model, early 1990s, likely JPM100 P1 or P2) | Mesa/Boogie Mark IIC+ Head | 6 |
| In the Name of God · solo | Solo · distorted | Ernie Ball Music Man JP6 (original John Petrucci signature, custom DiMarzio pickups) | Mesa/Boogie Road King (Mk I), Mesa Traditional 4x12 cabinet | 8 |
| Night Terror · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Majesty 7 | Mesa/Boogie JP-2C John Petrucci Signature Head | 7.5 |
| Pull Me Under · riff | Riff · clean | Ibanez RG760 (early 1990s, stock pickups, used on 'Pull Me Under' studio recording) | Zoom 9002 (multi-effects processor, used as amp/modeler for clean intro/verse in studio recording) | 0 |
| Scene Eight: The Spirit Carries On · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JP7, based on 1999 studio era) | Mesa/Boogie Mark IIC+ | 6.5 |
| Under a Glass Moon · riff | Riff · distorted | 1991 Ernie Ball Music Man John Petrucci Prototype (likely Basswood body, Floyd Rose, DiMarzio Custom humbuckers) | Mesa/Boogie Mark IIC+ (studio recording, 1992) | 8 |
| At Wit's End · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Majesty 7 | Mesa/Boogie JP-2C | 8 |
| Metropolis, Pt. 1: The Miracle and the Sleeper · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (JP6, likely prototype or early model) | Mesa/Boogie Mark IIC+ (studio recording, 1992) | 7.5 |
| Metropolis, Pt. 1: The Miracle and the Sleeper · riff | Riff · distorted | Ibanez JPM100 | Marshall JMP-1 Preamp into Mesa/Boogie Strategy 400 Power Amp | 8 |
| Octavarium · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (JP6, 2005-era, likely Mystic Dream finish) | Mesa/Boogie Triaxis Preamp into Mesa/Boogie 2:90 Power Amp (studio recording, 2005) | 7.5 |
| Pull Me Under · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6, 1991-1992 model, basswood body, rosewood fretboard) | Mesa/Boogie Mark IIC+ (studio recording, confirmed for solos on Images and Words era) | 7.5 |
| Scene Seven: I. The Dance of Eternity · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (JP6, likely with custom DiMarzio pickups) | Mesa/Boogie Mark IIC+ (studio recording, as per band/era and interviews) | 7.5 |
| Scene Six: Home · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JPM100, 7-string, DiMarzio pickups) | Mesa/Boogie Triaxis Preamp into Mesa/Boogie 2:90 Power Amp, Mesa/Boogie Rectifier 4x12 Cabinet with Celestion Vintage 30s | 7.5 |
| Scene Two: I. Overture 1928 · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (JP6, 1999 model, likely with custom DiMarzio pickups) | Mesa/Boogie Dual Rectifier (Rackmount, late 1990s studio version) | 7.5 |
| The Count of Tuscany · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JP7, 2009 era) | Mesa/Boogie Mark IV (studio recording, 2009 era) | 6.5 |
| Voices · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JPM100, as used on Awake album) | Mesa/Boogie Mark IIC+ (studio recording, as used on Dream Theater's 'Awake' album) | 7.5 |
| Ytse Jam · riff | Riff · distorted | 1986 Ibanez RG550 (likely, as used by John Petrucci on 'When Dream and Day Unite') | Mesa/Boogie Mark IIC+ (most likely for this album and era) | 7.5 |
| 6:00 · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JPM100, as used in 1994 studio sessions) | Mesa/Boogie Triaxis Preamp into Mesa/Boogie Simul-Class 2:Ninety Power Amp, Mesa/Boogie 4x12 cabinet | 7.5 |
| 6:00 · solo | Solo · distorted | Ibanez JPM100 | Mesa/Boogie Mark IIC+ | 7.5 |
| Another Day · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6 or similar, early 1990s version) | Mesa/Boogie Mark IIC+ | 6 |
| Another Day · riff | Riff · clean | Ernie Ball Music Man John Petrucci Signature (likely JP6, early 1990s model) | Mesa/Boogie Mark IIC+ Head | 0 |
| As I Am (Instrumental Demo 2003) · riff | Riff · distorted | Ernie Ball Music Man JP6 (John Petrucci Signature, early 2000s version) | Mesa/Boogie Dual Rectifier (likely 2-channel Rev G or early 3-channel), Mesa/Boogie 4x12 cabinet | 8.5 |
| At Wit's End · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Majesty 7 | Mesa/Boogie JP-2C (John Petrucci Signature Mark IIC+) | 7.5 |
| Barstool Warrior · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Majesty (2019 model, likely 6-string) | Mesa/Boogie JP-2C (John Petrucci Signature) or Mesa/Boogie Mark V (studio recording era) | 8 |
| Bend the Clock · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Majesty (likely 7-string, 2023 signature model) | Mesa/Boogie JP-2C (John Petrucci Signature Mark IIC+ head) | 7.5 |
| Bend the Clock · riff | Riff · clean | Ernie Ball Music Man Majesty (likely 6-string, as confirmed for 'Bend the Clock' in E Standard) | Mesa/Boogie JP-2C | 0 |
| Breaking All Illusions · solo | Solo · distorted | Ernie Ball Music Man JPXI 6 | Mesa/Boogie Mark V | 7.5 |
| Constant Motion · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JP7, 2007 era) | Mesa/Boogie Mark IV (studio recording, 2007), possible Mark IIC+ or Triaxis preamp also used | 8.5 |
| Forsaken · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6, 2007 spec) | Mesa/Boogie Mark IV | 7.5 |
| Hell's Kitchen · riff | Riff · clean | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JPM100, as used by Petrucci in the mid-late 1990s studio recordings) | Mesa/Boogie Triaxis Preamp into Mesa/Boogie Simul-Class 2:Ninety Power Amp (studio setup for 'Falling Into Infinity' era) | 0 |
| Hollow Years (Live à Paris 2024) · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Majesty 7 | Mesa/Boogie JP-2C (John Petrucci Signature) head | 6.5 |
| In the Name of God · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature Model (JP6, 2003-2004 spec) | Mesa Boogie Road King Series I | 8 |
| In the Presence of Enemies, Pt. 1 · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JP7, 2007 studio model) | Mesa/Boogie Mark IV (studio recording, 2007 era) | 7.5 |
| Innocence Faded · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature (JP6, early model, likely basswood body, rosewood fretboard) | Mesa/Boogie Quad Preamp into Mesa/Boogie Simul-Class 2:90 Power Amp, Mesa/Boogie 4x12 cabinet | 7.5 |
| Innocence Faded · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (JP6, 1994 prototype or early production) | Mesa/Boogie Mark IIC+ (studio recording, 1994 era) | 7.5 |
| Lines In the Sand · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JPM100, as used on 'Falling Into Infinity' 1997 studio recording) | Mesa/Boogie Mark IIC+ (studio recording, 1997; some sources mention Mark IV as possible variant, but IIC+ is most cited for this album) | 7.5 |
| Midnight Messiah · riff | Riff · distorted | Ernie Ball Music Man Majesty | Mesa/Boogie JP-2C | 8 |
| Night Terror · riff | Riff · distorted | Ernie Ball Music Man Majesty | Mesa/Boogie JP-2C | 7.5 |
| Octavarium (Live à Paris 2024) · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Majesty 7 (2024 signature model) | Fractal Audio Axe-FX III (amp modeling Mesa/Boogie Mark IIC+ or Mark IV), Mesa/Boogie 4x12 cabinet | 7.5 |
| On the Backs of Angels · riff | Riff · clean | Ernie Ball Music Man John Petrucci Signature (likely JPXI or Majesty, 6-string, with piezo) | Mesa/Boogie Mark V (studio recording, 2011 era; Axe-Fx II used for some clean tones in studio/live, but Mark V is primary studio amp for this album) | 0 |
| Panic Attack · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6 or early Majesty prototype, 2005 studio recording) | Mesa/Boogie Mark IIC+ (studio), Mesa/Boogie JP-2C (modern equivalent, cited for tone match) | 8 |
| Panic Attack · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature JP6 (2005, loaded with DiMarzio pickups) | Mesa/Boogie Dual Rectifier (studio recording, 2005) | 8 |
| Panic Attack · distorted | Distorted · distorted | Yamaha RBX6JM (John Myung Signature 6-string) | Ampeg SVT-4 Pro (likely, based on era and Myung's known rig) | 7 |
| Pull Me Under · solo | Solo · clean | Ernie Ball Music Man John Petrucci Signature (JP6, 1991-1992 model, likely basswood body, rosewood board) | Mesa/Boogie Mark IIC+ (studio recording, 1992) | 0 |
| Pull Me Under (2007 Remix) · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature (JP6) with DiMarzio pickups | Mesa/Boogie Mark IIC+ head | 7.5 |
| Scene Four: Beyond This Life · riff | Riff · distorted | Ernie Ball Music Man John Petrucci JP6 (likely 6-string, as used on Metropolis Pt. 2: Scenes from a Memory) | Mesa/Boogie Triaxis preamp into Mesa/Boogie Simul-Class 2:Ninety power amp, Mesa/Boogie Mark IIC+ (used in studio for heavy rhythm tones on this album) | 8 |
| Scene Seven: I. The Dance of Eternity · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature (JP6, likely with piezo off) | Mesa/Boogie Dual Rectifier (studio recording, 1999 era) | 8 |
| Scene Seven: II. One Last Time · riff | Riff · clean | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JP7, 1999 era) | Mesa/Boogie Mark IIC+ (studio recording, 1999) | 0 |
| Scene Six: Home · riff | Riff · distorted | Ernie Ball Music Man John Petrucci JP7 (7-string, early model) | Mesa/Boogie Mark IIC+ head into Mesa/Boogie Rectifier 4x12 cabinet | 8 |
| Scene Three: II. Fatal Tragedy · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (JP6, 1999 model, likely with custom DiMarzio pickups) | Mesa/Boogie Mark IIC+ (studio recording, 1999) | 7.5 |
| Space Dye Vest (Live) · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JP13, as used by Petrucci live in the 2010s) | Mesa/Boogie Mark V (Petrucci's main live amp in the 2010s) | 7 |
| Stream of Consciousness · riff | Riff · distorted | Music Man John Petrucci Signature Model | Mesa/Boogie Mark II C+ | 8 |
| Take the Time · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6, basswood body, maple neck, rosewood fretboard, DiMarzio pickups) | Mesa/Boogie Mark IIC+ (studio recording, 1992) | 7.5 |
| The Best of Times · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JP7, 2009 studio spec) | Mesa/Boogie Mark IIC+ and/or Mesa/Boogie Triaxis preamp into Mesa/Boogie power amp (studio recording era) | 7.5 |
| The Count of Tuscany · riff | Riff · clean | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JP7, with piezo bridge) | Mesa/Boogie Mark V | 0 |
| The Count of Tuscany · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JP7, 2009 era) | Mesa/Boogie Mark IV (studio recording, 2009) | 8 |
| The Count of Tuscany · solo | Solo · clean | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JP7, with piezo bridge) | Mesa/Boogie Mark IV (studio recording, 2009 era) | 0 |
| The Enemy Inside · riff | Riff · distorted | Ernie Ball Music Man JP13 7-string | Mesa/Boogie Mark V | 8 |
| The Mirror · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature (likely 6-string, pre-Majesty, with DiMarzio pickups) | Mesa/Boogie Dual Rectifier (studio recording, 1994 era) | 8.5 |
| The Root of All Evil · riff | Riff · distorted | Music Man John Petrucci JP6 | Mesa/Boogie Dual Rectifier (likely 2-channel or 3-channel, as used by Petrucci in 2005 studio sessions) | 8 |
| The Shadow Man Incident · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Majesty 7 | Mesa/Boogie JP-2C | 8 |
| This Dying Soul · riff | Riff · distorted | Ernie Ball Music Man JP6 (John Petrucci Signature, likely loaded with DiMarzio Crunch Lab and LiquiFire pickups) | Mesa/Boogie Mark IIC+ or Mesa/Boogie JP-2C (studio recording, Train of Thought era) | 8.5 |
| To Live Forever (Live in NYC - 1993) · solo | Solo · distorted | Ernie Ball Music Man John Petrucci Signature (JP6, 1993 prototype or early production) | Mesa/Boogie Mark IIC+ (used live by Petrucci in early 1990s, especially for solos) | 7 |
| Trial of Tears: I. It's Raining, II. Deep In Heaven, III. The Wasteland · riff | Riff · distorted | Ernie Ball Music Man John Petrucci Signature (likely JP6 or JPM100, as used in 1997 studio sessions) | Mesa/Boogie Mark IIC+ (studio recording, 1997) | 7.5 |
| Under a Glass Moon (Instrumental 1989-1991) · riff | Riff · distorted | Ibanez JPM100 | Mesa/Boogie Mark IIC+ | 7.5 |
| Untethered Angel · riff | Riff · distorted | Ernie Ball Music Man Majesty (6-string, tuned to C standard) | Mesa/Boogie JP-2C | 8 |