| 2005 | Speaks Volumes | Nico Muhly | | 3 |
| 2008 | Mothertongue | Nico Muhly | | 4 |
| 2010 | A Good Understanding | Nico Muhly; Los Angeles Master Chorale, Grant Gershon | | 1 |
| 2010 | I Drink The Air Before Me | Nico Muhly | | 4 |
| 2011 | Seeing Is Believing | Nico Muhly; Thomas Gould, Aurora Orchestra, Nicholas Collon | 5 | 1 |
| 2011 | From Here On Out | Nico Muhly, Jonny Greenwood, Richard Reed Parry; Kitchener-Waterloo Symphony, Edwin Outwater | | 1 |
| 2012 | Drones | Nico Muhly | | 2 |
| 2013 | Cycles | Nico Muhly; James McVinnie | | 2 |
| 2014 | Music for Heart and Breath | Richard Reed Parry; yMusic, Kronos Quartet, Nico Muhly, Bryce Dessner, Aaron Dessner & others | | 3 |
| 2014 | Two Boys | Nico Muhly | | 1 |
| 2015 | Nico Muhly: Cello Concerto / Ernest Bloch: Schelomo: Hebraic Rhapsody for Cello and Orchestra / Three Jewish Poems | Nico Muhly, Ernest Bloch; Zuill Bailey, Jun Märkl, Indianapolis Symphony Orchestra | | 1 |
| 2016 | Dawn To Dust | Read Thomas, Muhly, Norman; Colin Currie, Utah Symphony, Thierry Fischer | | 2 |
| 2016 | In the Summer House | Philip Glass / Nico Muhly | | 2 |
| 2016 | Keep in Touch | Nico Muhly & Nadia Sirota | | 1 |
| 2016 | Confessions | Nico Muhly & Teitur | 3 | 3 |
| 2017 | Planetarium | Sufjan Stevens, Nico Muhly, Bryce Dessner, James McAlister | 3.65 | 4 |
| 2018 | Peter Pears: Balinese Ceremonial Music | Thomas Bartlett & Nico Muhly | | 2 |
| 2020 | Muhly, Helbig, Long: Three Continents / Shostakovich: Cello Concerto no. 2 | Muhly, Helbig, Long, Shostakovich; Jan Vogler, WDR Sinfonieorchester, Cristian Măcelaru, Mariinsky Orchestra, Valery Gergiev | | 2 |
| 2021 | First Light | Nico Muhly, Philip Glass; Pekka Kuusisto, Det Norske Kammerorkester | | 2 |
| 2022 | Stranger - Works for Tenor by Nico Muhly | Nico Muhly; Nicholas Phan, Brooklyn Rider, The Knights, Reginald Mobley, Lisa Kaplan, Colin Jacobsen, Eric Jacobsen | | 1 |
| 2022 | BBC Music, Volume 30, Number 11: Lamentations Choral works | Tallis, Muhly, Brumel, Phinot; BBC Singers, Peter Phillips | | 1 |
| 2022 | The Street | Nico Muhly | Alice Goodman; Parker Ramsay, Choir of King’s College, Cambridge | | 1 |
| 2023 | Rolling River: American Choral | Leonard Bernstein, Samuel Barber, Herbert Howells, Caroline Shaw, David Lang, Nico Muhly, Choir of Clare College, Cambridge, Graham Ross & Iestyn Davies | | 1 |
