| 1972 | The Rite of Spring / King of the Stars | Игорь Фёдорович Стравинский; Boston Symphony Orchestra, Men's Chorus of The New England Conservatory, Michael Tilson Thomas | | 3 |
| 1973 | John Cage: Three Dances / Steve Reich: Four Organs | John Cage, Steve Reich; Michael Tilson Thomas, Ralph Grierson | 2 | 1 |
| 1974 | Carmina Burana | Carl Orff; Judith Blegen, Kenneth Riegel, Peter Binder, The Cleveland Orchestra Chorus, Cleveland Orchestra Boys Choir, Robert Page, The Cleveland Orchestra, Michael Tilson Thomas | | 7 |
| 1975 | Late Choral Music | Ludwig van Beethoven; London Symphony Orchestra, Michael Tilson Thomas | | 1 |
| 1976 | Rhapsody in Blue / An American in Paris / Broadway Overtures | George Gershwin; Michael Tilson Thomas | | 3 |
| 1984 | Concertos for Violin | Mendelssohn, Saint‐Saëns; Cho‐Liang Lin, Philharmonia Orchestra, Michael Tilson Thomas | | 1 |
| 1985 | Rhapsodies | Gershwin; Los Angeles Philharmonic, Michael Tilson Thomas | | 1 |
| 1985 | Casse-noisette | Tchaikovsky; Philharmonia Orchestra, Michael Tilson Thomas | | 2 |
| 1985 | Music From The Nutcracker | Tchaikovsky - Michael Tilson Thomas, Philharmonia Orchestra | | 2 |
| 1985 | Rhapsody in Blue / Second Rhapsody for Orchestra with Piano / Preludes / Unpublished Piano Works | Gershwin; Los Angeles Philharmonic, Michael Tilson Thomas | | 2 |
| 1985 | Symphony No. 3 / Orchestral Set No. 2 | Charles Ives; Concertgebouw Orchestra, Michael Tilson Thomas | | 1 |
| 1985 | Symphonies nos. 7 and 8 | Beethoven; English Chamber Orchestra, Michael Tilson Thomas | | 1 |
| 1986 | Piano Quartet, op. 25 – Two Chorale Preludes | Johannes Brahms, Johann Sebastian Bach, Arnold Schönberg; Symphonieorchester des Bayerischen Rundfunks & Michael Tilson Thomas | | 1 |
| 1986 | Symphony No. 3 "Eroica" / 12 Contredanses | Beethoven; Orchestra of St. Luke’s, Michael Tilson Thomas | | 1 |
| 1987 | Old American Songs, Canticle of Freedom & 4 Motets | Aaron Copland; The Tabernacle Choir at Temple Square, Utah Symphony & Michael Tilson Thomas | | 1 |
| 1988 | Symphony no. 4 / Three Places in New England / Central Park in the Dark | Ives; Boston Symphony Orchestra, Seiji Ozawa, Michael Tilson Thomas | | 2 |
| 1988 | Holidays Symphony / The Unanswered Question / Central Park in the Dark | Charles Ives; Chicago Symphony Orchestra, Chicago Symphony Chorus, Michael Tilson Thomas | | 2 |
| 1988 | La Mer / Nocturnes | Debussy; Philharmonia Orchestra, Michael Tilson Thomas | | 3 |
| 1988 | Symphony no. 3 / Rückert-Lieder | Mahler; London Symphony Orchestra, Michael Tilson Thomas, Dame Janet Baker | | 1 |
| 1988 | Symphony No. 9 "Choral" | Beethoven; English Chamber Orchestra, Michael Tilson Thomas | | 1 |
| 1988 | Symphony no. 2 / Symphony no. 3 / Trumpets / Ophelia Dances / Coursing / Cantata | Oliver Knussen; Philharmonia Orchestra, Michael Tilson Thomas, London Sinfonietta, Oliver Knussen, The Nash Ensemble | | 1 |
| 1988 | The Seven Deadly Sins / Little Threepenny Music | Kurt Weill; Julia Migenes, Robert Tear, Stuart Kale, Alan Opie, Roderick Kennedy, London Symphony Orchestra, Michael Tilson Thomas | | 1 |
| 1989 | Bolero / Rapsodie Espagnole | Ravel; London Symphony Orchestra, Michael Tilson Thomas | | 1 |
| 1989 | Ein Helenleben / Till Eulenspiegel | Richard Strauss; London Symphony Orchestra, Michael Tilson Thomas | | 1 |
| 1989 | Symphonies nos. 1 & 2 | Beethoven; English Chamber Orchestra, Michael Tilson Thomas | | 1 |
| 1990 | Tosca | Puccini / Michael Tilson Thomas / José Carreras, Éva Marton, Juan Pons, Gáti István, Italo Tajo, Hungarian State Orchestra, Hungarian State Radio & Television Chorus | | 1 |
| 1991 | Symphonies nos. 2 & 3 | Charles Ives; Concertgebouw Orchestra, Michael Tilson Thomas | | 3 |
| 1991 | Also sprach Zarathustra / Don Juan | Richard Strauss; London Symphony Orchestra, Michael Tilson Thomas | | 2 |
| 1991 | The Nutcracker | Tchaikovsky; Philharmonia Orchestra, Michael Tilson Thomas | | 1 |
| 1991 | Music from Giselle: Ballet Music | Adolphe Adam; London Symphony Orchestra, Michael Tilson Thomas | 4 | 2 |
| 1991 | Swan Lake (Complete Ballet) | Tchaikovsky; London Symphony Orchestra, Michael Tilson Thomas | | 2 |
| 1991 | Symphonies nos. 1 & 4 | Charles Ives; Chicago Symphony Orchestra & Chorus, Michael Tilson Thomas | | 2 |
| 1992 | Serenade Nr. 2 / Variationen über ein Thema von Joseph Haydn / Ungarische Tänze | Brahms; London Symphony Orchestra, Michael Tilson Thomas | | 1 |
| 1992 | Glagolitic Mass / Sinfonietta | Leoš Janáček; London Symphony Orchestra, London Symphony Chorus, Michael Tilson Thomas | | 1 |
| 1992 | Jeux, La Boite A Joujoux, Prelude A L’Apres Midi D’Un Faune | Claude Debussy; London Symphony Orchestra & Michael Tilson Thomas | | 1 |
| 1992 | Le Martyre de Saint Sebastien | Debussy; London Symphony Orchestra, London Symphony Chorus, Michael Tilson Thomas | | 1 |
| 1992 | Symphony No. 5 / Symphony No. 1 "Classical" | Prokofiev, London Symphony Orchestra, Michael Tilson Thomas | | 1 |
| 1993 | Latin American Classics | The New World Symphony, Michael Tilson Thomas | | 2 |
| 1993 | Copland: Clarinet Concerto / Bernstein: Sonata for Clarinet / Gershwin: Three Preludes | Copland, Bernstein, Gershwin; Richard Stoltzman, London Symphony Orchestra, Michael Tilson Thomas, Eric Stern | | 1 |
| 1993 | Cello Concerto no. 1 / Sonata no. 1 / Romances | Saint‐Saëns; London Symphony Orchestra, Michael Tilson Thomas, Steven Isserlis, Pascal Devoyon | 4 | 1 |
| 1993 | Sibelius: Violin Concerto / Chausson: Poème | Sibelius, Chausson; Nadja Salerno‐Sonnenberg, Michael Tilson Thomas, London Symphony Orchestra | | 1 |
| 1993 | Dudley Moore introduces Concerto! Mozart: Concerto for Flute and Harp | Dudley Moore, Michael Tilson Thomas, James Galway, Marisa Robles | | 1 |
| 1993 | Piano Concerto no. 2 / Preludes | Rachmaninoff; Barry Douglas, London Symphony Orchestra, Michael Tilson Thomas | | 1 |
| 1993 | Piano Concerto no. 1 / Piano Sonata Op. 28 (Pastoral) | Beethoven; Alicia de Larrocha, London Symphony Orchestra, Tilson Thomas | | 1 |
| 1994 | Cello Concertos nos. 1 & 2 | Shostakovich; Mischa Maisky, London Symphony Orchestra, Michael Tilson Thomas | | 2 |
| 1994 | Oboe Concerto | Dominic Muldowney; London Symphony Orchestra, Michael Tilson Thomas, Roy Carter | | 1 |
| 1994 | Piano Concertos | Schumann, Grieg; Jean-Marc Luisada, London Symphony Orchestra, Michael Tilson Thomas | | 1 |
| 1994 | Symphony of Psalms / Symphony in C / Symphony in Three Movements | Stravinsky; London Symphony Orchestra and Chorus, Michael Tilson Thomas | | 1 |
| 1995 | Barber: Knoxville: Summer of 1915 / Copland: Eight Poems of Emily Dickinson | Copland, Barber; London Symphony Orchestra, Michael Tilson Thomas, Barbara Hendricks | | 1 |
| 1995 | Cello Concerto No. 1 / Piano Concerto No. 2 / Violin Concerto No. 3 | Saint‐Saëns; Yo‐Yo Ma, Orchestre National de France, Lorin Maazel, Cecile Licad, London Philharmonic Orchestra, André Previn, Cho-Liang Ling, Philharmonia, Michael Tilson Thomas | 5 | 3 |
| 1995 | Defining Dahl | Ingolf Dahl; New World Symphony & Michael Tilson Thomas | | 1 |
| 1996 | Romeo and Juliet | Prokofiev; San Francisco Symphony, Michael Tilson Thomas | | 2 |
| 1996 | Copland: The Modernist | Copland; San Francisco Symphony, Michael Tilson Thomas, Garrick Ohlsson | | 2 |
| 1996 | Arias and Barcarolles / A Quiet Place: Suite / West Side Story: Symphonic Dances | Leonard Bernstein; London Symphony Orchestra, Michael Tilson Thomas, Thomas Hampson, Frederica von Stade | | 1 |
| 1996 | Alma Brasileira | Heitor Villa‐Lobos, New World Symphony, Michael Tilson Thomas & Renée Fleming | | 1 |
| 1997 | Alma Brasileira | Heitor Villa‐Lobos; Michael Tilson Thomas, New World Symphony Orchestra, Renée Fleming | | 1 |
| 1998 | Coptic Light | Morton Feldman; New World Symphony Orchestra, Michael Tilson Thomas | 5 | 1 |
| 1998 | New World Jazz | New World Symphony, Michael Tilson Thomas | | 1 |
| 1998 | Symphonie fantastique / Lélio | Berlioz; San Francisco Symphony & Chorus, Michael Tilson Thomas | | 2 |
| 1998 | Symphony No. 6 / Scherzo capriccioso / "American" Suite | Dvořák; Philharmonia Orchestra, Berlin Radio Symphony Orchestra, Andrew Davis, Michael Tilson Thomas | 4 | 1 |
| 1998 | The 100th Birthday Celebration | George Gershwin; San Francisco Symphony, Michael Tilson Thomas | | 1 |
| 1999 | Symphony no. 7 | Mahler; Michael Tilson Thomas, London Symphony Orchestra | | 2 |
| 1999 | L'Oiseau de feu / Le Sacre du printemps / Perséphone | Stravinsky; San Francisco Symphony, Michael Tilson Thomas | | 1 |
| 2000 | Tchaikovsky: Symphony no. 1 / Debussy: Images | Tchaikovsky, Debussy; Boston Symphony Orchestra, Michael Tilson Thomas | | 2 |
| 2000 | Copland: The Populist | Copland; San Francisco Symphony, Michael Tilson Thomas | | 1 |
| 2000 | Fanfare for the Common Man: On Aaron Copland, the Man and His Music | Aaron Copland; Michael Tilson Thomas | | 1 |
| 2001 | Tuck and Roll: The Music of Steven Mackey | Steven Mackey; Michael Tilson Thomas, Steven Mackey, New World Symphony | | 1 |
| 2002 | Angel Artistry: Cage: Three Dances / Reich: Four Organs / Stravinsky: Rite of Spring | John Cage, Steve Reich, Igor Stravinsky; Michael Tilson Thomas, Ralph Grierson | | 1 |
| 2004 | Rhapsody in Blue; Concerto in F; An American in Paris: Classic Library Series | George Gershwin & Michael Tilson Thomas | | 2 |
| 2005 | Appalachian Spring / Billy the Kid / Rodeo | Aaron Copland; Michael Tilson Thomas, San Francisco Symphony | | 1 |
| 2005 | Violin Concerto / Meditation / Danse Russe | Tchaikovsky; Berliner Philharmoniker, Michael Tilson Thomas, Joshua Bell | | 2 |
| 2005 | Cello Concertos Nos. 1 & 2 / La Muse et le Poète / Suite | Saint‐Saëns; Steven Isserlis, London Symphony Orchestra, Michael Tilson Thomas, NDR Sinfonieorchester, Christoph Eschenbach | 5 | 1 |
| 2005 | Le Sacre du printemps / Le Roi des étoiles / Pétrouchka | Stravinsky; Michael Tilson Thomas, Charles Dutoit | 5 | 2 |
| 2007 | Das klagende Lied | Gustav Mahler; San Francisco Symphony; Michael Tilson Thomas | | 1 |
| 2008 | Rhapsody in Blue / American in Paris | George Gershwin; Michael Tilson Thomas, San Francisco Symphony, New World Symphony | | 1 |
| 2008 | The Repentant Thief | Tavener, Patricia Rozario, Andrew Marriner, Michael Tilson Thomas, The London Symphony Orchestra | | 1 |
| 2011 | Symphony no. 5 / Piano Concerto no. 4 | Beethoven; San Francisco Symphony, Michael Tilson Thomas, Emanuel Ax | | 1 |
| 2011 | Ives/Brant: A Concord Symphony / Copland: Organ Symphony | Ives/Brant, Copland; San Francisco Symphony, Michael Tilson Thomas, Paul Jacobs | | 1 |
| 2012 | Harmonielehre / Short Ride in a Fast Machine | John Adams; San Francisco Symphony, Michael Tilson Thomas | | 1 |
| 2012 | Leonore Overture no. 3, op. 72a / Symphony no. 7 in A major, op. 92 | Beethoven; San Francisco Symphony, Michael Tilson Thomas | | 1 |
| 2012 | American Mavericks | San Francisco Symphony, Michael Tilson Thomas | | 2 |
| 2012 | The Complete Music of Carl Ruggles | Carl Ruggles; Buffalo Philharmonic, Michael Tilson Thomas | | 1 |
| 2012 | The Seven Deadly Sins / Little Threepenny Music | Weill; Julia Migenes, Robert Tear, Stuart Kale, Alan Opie, Roderick Kennedy, London Symphony Orchestra, Michael Tilson Thomas | | 1 |
| 2014 | Masterpieces in Miniature | San Francisco Symphony, Michael Tilson Thomas | | 1 |
| 2015 | Absolute Jest / Grand Pianola Music | John Adams; San Francisco Symphony, Michael Tilson Thomas | | 1 |
| 2015 | Piano Concerto no. 3 / Mass in C major | Beethoven; San Francisco Symphony, Michael Tilson Thomas, Emanuel Ax | | 1 |
| 2015 | Symphony no. 9 | Ludwig van Beethoven; San Francisco Symphony, Michael Tilson Thomas | | 1 |
| 2016 | Works for Orchestra | Mason Bates; San Francisco Symphony, Michael Tilson Thomas | | 1 |
| 2018 | Symphony no. 6, “Pathétique” | Tchaikovsky; San Francisco Symphony & Michael Tilson Thomas | | 1 |
| 2019 | Ives: Symphony No. 3, "The Camp Meeting" & Symphony No. 4 | Ives; San Francisco Symphony, Michael Tilson Thomas | | 1 |
| 2020 | Haydn: Cello Concerto No. 2 | Haydn; San Francisco Symphony, Michael Tilson Thomas | | 1 |
| 2020 | Mahler: Symphony No. 6 | Mahler; San Francisco Symphony, Michael Tilson Thomas | | 1 |
| 2020 | Stravinsky: Canticum sacrum | Stravinsky;San Francisco Symphony, Michael Tilson Thomas | | 1 |
| 2020 | From the Diary of Anne Frank & Meditations on Rilke | Michael Tilson Thomas; San Francisco Symphony | | 1 |
| 2022 | Upon Further Reflection | Michael Tilson Thomas, Earl Wild, Aaron Copland; John Wilson | | 1 |
| 2023 | The American Project | Teddy Abrams, Michael Tilson Thomas & Yuja Wang | | 3 |
| 2024 | Grace: The Music of Michael Tilson Thomas | Michael Tilson Thomas, Isabel Leonard, Audra McDonald, Renée Fleming, Jean‐Yves Thibaudet, The Bay Brass, New World Symphony, San Francisco Symphony & John Wilson | | 1 |
| — | Concertos for Piano and Orchestra Nos. 1, 2 | Prokofiev; Vladimir Feltsman, London Symphony Orchestra, Michael Tilson Thomas | | 1 |
