| 1989 | Proensa | Paul Hillier, Stephen Stubbs, Andrew Lawrence‐King, Erin Headley | | 1 |
| 1989 | Airs & Danses au Temps de Shakespeare | Musica Antiqua, John Elwes, Stephen Stubbs | | 1 |
| 1990 | ¡Ay Amor!: Spanish 17th c. Songs and Theatre Music | The Newberry Consort, Marion Verbruggen, Stephen Stubbs, Andrew Lawrence‐King | | 2 |
| 1991 | Troubadour Songs and Medieval Lyrics | Paul Hillier, Stephen Stubbs, Lena-Liis Kiesel | | 1 |
| 1992 | Lautensuiten | Stephen Stubbs | | 1 |
| 1993 | Madrigali Concertati | Claudio Monteverdi; Tragicomedia, Stephen Stubbs | | 2 |
| 1993 | “A Gift of Nature” English Chamber Music of the 17th Century | Trio Sonnerie, Stephen Stubbs, Andrew Lawrence‐King | | 1 |
| 1994 | Notenbuchlein Fur Anna Magdalena Bach | Stephen Stubbs | | 2 |
| 1995 | Lute Pieces | David Kellner; Stephen Stubbs | | 1 |
| 1996 | La Morte D'Orfeo | Stefano Landi & Stephen Stubbs | | 1 |
| 1997 | Captain Humes Poeticall Musicke Volume 1 | Tobias Hume; Les Voix humaines, Stephen Stubbs, Maude Audet, Réjean Poirier, Francis Colpron, Daniel Taylor | | 1 |
| 1997 | Captain Humes Poeticall Musicke, Volume 2 | Tobias Hume; Les Voix humaines, Stephen Stubbs, Paul Audet, Réjean Poirier, Francis Colpron, Daniel Taylor | | 2 |
| 2000 | The Golden Age Of The French Lute | Stephen Stubbs | | 1 |
| 2002 | Love Duets | Georg Friedrich Händel; Suzie LeBlanc, Daniel Taylor, Arion, Stephen Stubbs | | 1 |
| 2006 | Teatro Lirico | Stephen Stubbs | | 1 |
| 2007 | Vivaldi: Suzie LeBlanc | Antonio Vivaldi; Suzie LeBlanc, Teatro Lirico & Stephen Stubbs | | 1 |
| 2008 | Psyché (disc 1: Prologue / Act I) | Jean‐Baptiste Lully, Boston Early Music Festival Orchestra & Chorus, Paul O’Dette & Stephen Stubbs | | 1 |
| 2011 | Love and Death in Venice | Suzie LeBlanc, Derek Lee Ragin, Teatro Lirico, Stephen Stubbs | | 1 |
| 2015 | Niobe, regina di Tebe | Agostino Steffani; Karina Gauvin, Philippe Jaroussky, Amanda Forsythe, Christian Immler, Aaron Sheehan, Terry Wey, Jesse Blumberg, Colin Balzer, José Lemos, Boston Early Music Festival Orchestra, Paul O’Dette, Stephen Stubbs | | 2 |
| 2021 | Stylus Phantasticus | Tekla Cunningham, William Skeen, Stephen Stubbs, Maxine Eilander & Henry Lebedinsky | | 1 |
| 2025 | La serva padrona; Livietta e Tracollo | Giovanni Battista Pergolesi; Amanda Forsythe, Christian Immler, Carlotta Colombo, Jesse Blumberg, Boston Early Music Festival Chamber Ensemble, Paul O’Dette, Stephen Stubbs, Robert Mealy | | 1 |
