| 1987 | Arias for Senesino | Handel; Drew Minter, Philharmonia Baroque Orchestra, Nicholas McGegan | | 1 |
| 1988 | Mozart: Horn Concertos, Rondeau K.371, Rondo K.514 | Lowell Greer, Philharmonia Baroque Orchestra, Nicholas McGegan & Wolfgang Amadeus Mozart | | 1 |
| 1988 | La Giuditta | Alessandro Scarlatti; Mária Zádori, Katalin Gémes, Drew Minter, Guy de Mey, József Gregor, Capella Savaria & Nicholas McGegan | | 1 |
| 1988 | Vivaldi: Flute Concertos & Recorder Concertos | Antonio Vivaldi, Janet See, Marion Verbruggen, Philharmonia Baroque Orchestra & Nicholas McGegan | | 1 |
| 1988 | Water Musick | Georg Friedrich Händel; Philharmonia Baroque Orchestra, Nicholas McGegan | | 1 |
| 1989 | Concerti Grossi, op. 6 1-6 | Corelli; Philharmonia Baroque Orchestra, Nicholas McGegan | | 2 |
| 1989 | Susanna | Georg Friedrich Händel; Philharmonia Baroque Orchestra, UC Berkeley Chamber Chorus, Nicholas McGegan | | 1 |
| 1989 | The Mozart Tenor | Mozart; Rockwell Blake, London Symphony Orchestra, Nicholas McGegan | | 1 |
| 1990 | Arias for Montagnana | George Frideric Handel; David Thomas, Philharmonia Baroque Orchestra, Nicholas McGegan | | 1 |
| 1990 | Juditha Triumphans | Antonio Vivaldi; Gloria Banditelli, Mária Zádori, Németh Judit, Annette Markert, Katalin Gémes, Capella Savaria, Nicholas McGegan | | 2 |
| 1990 | La Resurrezione | Georg Friedrich Händel; Philharmonia Baroque Orchestra, Nicholas McGegan | | 1 |
| 1991 | Messiah | Handel; Philharmonia Baroque Orchestra, Nicholas McGegan | | 1 |
| 1992 | Agrippina | Georg Friedrich Händel; Nicholas McGegan, Sally Bradshaw, Lisa Saffer, Drew Minter, Wendy Hill, Nicholas Isherwood, Ralf Popken, Michael Dean, Gloria Banditelli, Béla Szilágyi, Capella Savaria | | 1 |
| 1992 | Messiah | Handel; Lorraine Hunt, Janet Williams, Patricia Spence, Drew Minter, Jeffrey Thomas, William Parker, U.C. Berkeley Chamber Chorus, Philharmonia Baroque Orchestra, Nicholas McGegan | | 1 |
| 1992 | Clori, Tirsi e Fileno | Handel; Lorraine Hunt, Jill Feldman, Drew Minter, Philharmonia Baroque Orchestra, Nicholas McGegan | | 3 |
| 1992 | Arias for Durastanti | Handel; Lorraine Hunt, Philharmonia Baroque Orchestra, Nicholas McGegan | | 1 |
| 1992 | Suites & Sonates des 'Ayres for the Violin' | Nicola Matteis; The Arcadian Academy, Nicholas McGegan | | 1 |
| 1992 | Theodora | Handel - Lorraine Hunt, Drew Minter, Jennifer Lane, Jeffrey Thomas, David Thomas, Chamber Chorus of the University of California, Berkeley, Philharmonia Baroque Orchestra & Nicholas McGegan | | 1 |
| 1993 | Atalanta | Handel; Katalin Farkas, Éva Bártfai-Barta, Éva Lax, János Bándi, József Gregor, László Polgár, Capella Savaria, Nicholas McGegan | | 1 |
| 1993 | Flute Concertos | Vivaldi; Philharmonia Baroque Orchestra, Nicholas McGegan, Janet See | | 2 |
| 1994 | Arias | Handel; Lorraine Hunt, Philharmonia Baroque Orchestra, Nicholas McGegan | | 1 |
| 1996 | Ariodante | Handel; Lorraine Hunt, Juliana Gondek, Lisa Saffer, Jennifer Lane, Rufus Müller, Nicolas Cavallier, Wilhelmshavener Vokalensemble, Ralf Popken, Freiburger Barockorchester, Nicholas McGegan | | 2 |
| 1996 | Handel - Apollo e Dafne | Philharmonia Baroque Orchestra, Judith Nelson, David Thomas & Nicholas McGegan | | 1 |
| 1996 | Giustino | Handel; Nicholas McGegan | | 1 |
| 1996 | Ottone | George Frideric Handel; Nicholas McGegan, Drew Minter, Lisa Saffer, Juliana Gondek, Patricia Spence, Ralf Popken, Michael Dean, Freiburger Barockorchester | | 1 |
| 1997 | Cantatas, Volume I | Alessandro Scarlatti; Nicholas McGegan, Christine Brandes, Arcadian Academy | | 1 |
| 1997 | Vivaldi for Diverse Instruments | Antonio Vivaldi; Philharmonia Baroque Orchestra, Nicholas McGegan | | 1 |
| 1998 | Cantatas, Volume II | Alessandro Scarlatti; David Daniels, Arcadian Academy, Nicholas McGegan | | 1 |
| 1998 | Fire & Water | Handel; Scottish Chamber Orchestra, Nicholas McGegan | | 2 |
| 1999 | Alfred | Arne; Nicholas McGegan, Jennifer Smith, Christine Brandes, David Daniels, Jamie MacDougall, Philharmonia Baroque Orchestra, Philharmonia Chorale | | 1 |
| 2000 | Cantatas, Volume III | Alessandro Scarlatti; Nicholas McGegan & Brian Asawa | | 1 |
| 2000 | The Masque of Alfred | Thomas Arne; Jennifer Smith, Christine Brandes, David Daniels, Jamie MacDougall, Philharmonia Baroque Orchestra, Philharmonia Chorale, Nicholas McGegan | | 1 |
| 2001 | Clavierbüchlein für Anna Magdalena Bach (a selection) | J.S. Bach; Nicholas McGegan, Lorraine Hunt, David Bowles | | 2 |
| 2001 | Cantatas, Volume IV: Duet Cantatas | Alessandro Scarlatti; Dominique Labelle, Christine Brandes, Nicholas McGegan, Arcadian Academy | | 1 |
| 2001 | Horn Concertos | Wolfgang Amadeus Mozart; Philharmonia Baroque Orchestra, Nicholas McGegan, Lowell Greer | | 2 |
| 2001 | Opera Arias Volume 1 - Arias For Senesino | Georg Friedrich Händel - Nicholas McGegan, Philharmonia Baroque Orchestra, Drew Minter | | 1 |
| 2002 | Flute Concertos / Recorder Concertos | Vivaldi; Janet See, Marion Verbruggen, Philharmonia Baroque Orchestra, Nicholas McGegan | | 1 |
| 2002 | The Four Seasons | Vivaldi; Anthony Marwood, Scottish Chamber Orchestra, Nicholas McGegan | | 1 |
| 2003 | Clori, Tirsi e Fileno + Apollo e Dafne | George Frideric Handel; Philharmonia Baroque Orchestra & Nicholas McGegan | | 1 |
| 2004 | Verse Anthems | Pelham Humfrey; Romanesca, Nicholas McGegan | | 1 |
| 2006 | Dido and Aeneas | Purcell; Lorraine Hunt Lieberson, Lisa Saffer, Paul Elliott, Michael Dean, The Choir of Clare College, Cambridge, Philharmonia Baroque Orchestra, Nicholas McGegan | | 1 |
| 2011 | The Four Seasons / Violin Concertos | Vivaldi; Philharmonia Baroque Orchestra, Nicholas McGegan, Elizabeth Blumenstock | | 1 |
| 2013 | Symphonies nos. 4 & 7 | Beethoven; Philharmonia Baroque Orchestra, Nicholas McGegan | | 1 |
| 2014 | Symphonies & Violin Concerto | Joseph Martin Kraus; Zsolt Kalló, Capella Savaria, Nicholas McGegan | | 1 |
| 2017 | The Complete Works for Violin and Orchestra | Mozart; Zsolt Kalló, Capella Savaria, Nicholas McGegan | | 2 |
| 2018 | Before Mozart: Early Horn Concertos | Alec Frank-Gemmill, Swedish Chamber Orchestra, Nicholas McGegan | | 1 |
| 2019 | Complete Music for Keyboard | Josef Mysliveček; Clare Hammond, Swedish Chamber Orchestra, Nicholas McGegan | | 2 |
| 2022 | Violinkonzerte Nr. 1–5 / Adagio, KV 261 / Rondo, KV 373 | Wolfgang Amadeus Mozart; SWR Symphonieorchester, Nicholas McGegan, Gil Shaham | | 1 |
| 2022 | Double Concertos | Mozart; Capella Savaria, Zsolt Kalló, Nicholas McGegan | | 1 |
| 2023 | Symphony no. 57 / Symphony no. 67 / Symphony no. 68 | Joseph Haydn; Philharmonia Baroque Orchestra, Nicholas McGegan | | 1 |
| — | Arias for Cuzzoni | Handel; Lisa Saffer, Philharmonia Baroque Orchestra, Nicholas McGegan | | 1 |
| — | Der Geduldige Socrates | Georg Philipp Telemann; József Gregor, Katalin Farkas, Éva Vámossy, Éva Bártfai-Barta, Julia Paszthy, Guy de Mey, Paul Esswood, Martin Klietmann, Gáti István, Savaria Vocal Ensemble, Capella Savaria, Nicholas McGegan | | 1 |
| — | Naïs | Jean-Philippe Rameau; English Bach Festival Chorus, English Bach Festival Baroque Orchestra, Nicholas McGegan, Linda Russell, Ian Caley, Ian Caddy, Anthony Ransom, Jennifer Smith | | 1 |
| — | Symphony no. 9 / Opferlied | Ludwig van Beethoven; Philharmonia Baroque Orchestra, San Francisco Choral Artists, UC Berkeley Chamber Chorus, Nicholas McGegan | | 1 |
