| 1970 | The Stoned Guest | P.D.Q. Bach; Kleinman, Haywood, Ferrante, Bernice, Schickele, The Hoople Heavy Opera Company, John Nelson | | 2 |
| 1991 | Arias | Johann Sebastian Bach; Kathleen Battle, Itzhak Perlman, Orchestra of St. Luke’s, John Nelson | 2 | 4 |
| 1992 | Arias for Soprano and Violin | J. S. Bach; Kathleen Battle, Itzhak Perlman, Orchestra of St. Luke’s, John Nelson | | 1 |
| 1992 | Baroque Duet | Kathleen Battle, Wynton Marsalis, Anthony Newman, Orchestra of St. Luke’s & John Nelson | | 1 |
| 1992 | Béatrice et Bénédict | Berlioz; Graham, Viala, McNair, Robbin, Bacquier, Cachemaille, Le Texier, Orchestre de l’Opéra de Lyon, Chœur de l’Opéra de Lyon, John Nelson | | 1 |
| 1992 | Symphony no. 1 / Prologue and Variation / Celebration | Ellen Taaffe Zwilich; Indianapolis Symphony Orchestra, John Nelson | | 1 |
| 1993 | Semele | George Frideric Handel; Kathleen Battle, Marilyn Horne, Samuel Ramey, John Aler, Sylvia McNair, Michael Chance, John Nelson | | 1 |
| 1993 | Beatus Vir / Old Polish Music / Totus Tuus | Górecki; Nikita Storojev, Prague Philharmonic Choir, Czech Philharmonic Orchestra, John Nelson | | 1 |
| 1994 | Four Parables / Vaudeville / Klezmer Rondos | Paul Schoenfield; New World Symphony, John Nelson | | 1 |
| 2003 | Bel Canto Arias | Donizetti, Rossini; Vivica Genaux, Ensemble Orchestral de Paris, John Nelson | | 1 |
| 2004 | Brahms: Alt‐Rhapsody / Wagner: Wesendonck‐Lieder / Mahler: Der Abschied | Brahms, Wagner, Mahler; Stephanie Blythe, Ensemble A Sei Voci, Ensemble Orchestral de Paris, John Nelson | | 1 |
| 2004 | Benvenuto Cellini | Berlioz;Gregory Kunde, Patrizia Ciofi, Joyce DiDonato, Jean-François Lapointe, Laurent Naouri, Renaud Delaigue, Chœur de Radio France, Orchestre national de France, John Nelson | | 1 |
| 2004 | Les Nuits d'Été | Hector Berlioz, Maurice Ravel, Gabriel Fauré; David Daniels, Ensemble Orchestral de Paris, John Nelson | | 1 |
| 2007 | concertos pour piano n°1 & n°2 | Fryderyk Chopin, Boris Berezovsky & John Nelson | | 1 |
| 2019 | Requiem: Grande Messe des morts | Hector Berlioz; Michael Spyres, London Philharmonic Choir, Philharmonia Chorus, Philharmonia Orchestra, John Nelson | | 1 |
| 2022 | French Cello | Marc Coppey, Orchestre philharmonique de Strasbourg, John Nelson | | 1 |
| 2023 | Roméo et Juliette / Cléopâtre | Berlioz; DiDonato, Dubois, Maltman, Coro Gulbenkian, Chœur de l’OnR, Orchestre philharmonique de Strasbourg, John Nelson | | 1 |
| 2023 | Messiah | Handel; Lucy Crowe, Alex Potter, Michael Spyres, Matthew Brook, The English Concert & Choir, John Nelson | | 1 |
| — | Te Deum | Hector Berlioz; Orchestre de Paris, John Nelson | | 1 |
