| 2023 | Nam June Paik: Moon Is the Oldest TVMovie | Self (archive footage) | 101 |
| 2022 | Film: The Living Record of Our MemoryMovie | Self | 100 |
| 2022 | Fragments of ParadiseMovie | Self (archive footage) | 100 |
| 2022 | Please Leave a Message: Anthology Film Archives Voicemails Through the AgesMovie | — | 100 |
| 2022 | VertigoMovie | — | 100 |
| 2021 | The Velvet UndergroundMovie | Self | 99 |
| 2021 | The Invisible FatherMovie | Self (archive footage) | 99 |
| 2021 | 9/11: Life Under AttackMovie | Self | 99 |
| 2020 | TapesMovie | — | 98 |
| 2020 | Tiny Tim: King for a DayMovie | Himself | 98 |
| 2019 | 3 Friends Singing (...in the Desert)Movie | — | 97 |
| 2019 | Self Discovery for Social SurvivalMovie | Narrator (voice) | 97 |
| 2018 | Beyond the BolexMovie | Self | 96 |
| 2018 | Barbara Rubin and the Exploding NY UndergroundMovie | — | 96 |
| 2018 | George: The Story of George Maciunas and FluxusMovie | Self | 96 |
| 2018 | NitschMovie | — | 96 |
| 2017 | I Don't Know Which Tree It Comes From that FragranceMovie | Self | 95 |
| 2016 | On the Holy SpiritMovie | — | 94 |
| 2016 | EXPRMNTLMovie | himself | 94 |
| 2016 | Reminiscences of Jonas MekasMovie | Self | 94 |
| 2015 | Filmstudio, mon amourMovie | Sé stesso | 93 |
| 2014 | River of FundamentMovie | Wake Guest | 92 |
| 2013 | What Is Cinema?Movie | Self | 91 |
| 2012 | Out-Takes from the Life of a Happy ManMovie | Jonas Mekas | 90 |
| 2011 | Free Radicals: A History of Experimental FilmMovie | Himself | 89 |
| 2011 | Cyclopean 3D: Life with a Beautiful WomanMovie | — | 89 |
| 2011 | Cinematic Correspondences: Jonas Mekas - J.L. GuerinMovie | Himself | 89 |
| 2011 | GuestMovie | Self | 89 |
| 2011 | My Paris MovieMovie | — | 89 |
| 2011 | Re: Maciunas and FluxusMovie | — | 89 |
| 2011 | 3.11 A Sense of Home FilmsMovie | Himself (voice) (segment "Mt. Ventoux") | 89 |
| 2010 | LavenderMovie | Self | 88 |
| 2009 | It Came from KucharMovie | Self (archive footage) | 87 |
| 2009 | The Perfect Team: The Making of 'On the Bowery'Movie | Self | 87 |
| 2008 | Notes on an American Film Director at WorkMovie | Self | 86 |
| 2008 | Andy Warhol's Factory People... Inside the Sixties Silver FactoryMovie | — | 86 |
| 2007 | 365 Day ProjectMovie | Self | 85 |
| 2007 | Jack Smith and the Destruction of AtlantisMovie | Self | 85 |
| 2006 | Notes on Marie MenkenMovie | Self | 84 |
| 2006 | Anger MeMovie | Himself | 84 |
| 2006 | Salvador Dalí at WorkMovie | Self | 84 |
| 2005 | Excavating Taylor MeadMovie | Self | 83 |
| 2004 | A Letter from GreenpointMovie | Mekas | 82 |
| 2003 | Axiom of ChoiceMovie | Self | 81 |
| 2002 | In the Mirror of Maya DerenMovie | Himself | 80 |
| 2002 | Notes in Lifestyle MarginsMovie | — | 80 |
| 2000 | As I Was Moving Ahead Occasionally I Saw Brief Glimpses of BeautyMovie | Narrator (voice) | 78 |
| 1999 | Laboratorium AnthologyMovie | Himself | 77 |
| 1998 | Song of AvignonMovie | Self | 76 |
| 1997 | Scenes from Allen's Last Three Days on Earth as a SpiritMovie | Self | 75 |
| 1996 | Michael Snow Up CloseMovie | Himself | 74 |
| 1995 | Nico IconMovie | Self | 73 |
| 1994 | Jonas in the DesertMovie | Self | 72 |
| 1993 | The Misfits - 30 Years of FluxusMovie | Self | 71 |
| 1992 | Zefiro Torna or Scenes from the Life of George Maciunas (Fluxus)Movie | — | 70 |
| 1991 | Quartet Number OneMovie | — | 69 |
| 1990 | Superstar: The Life and Times of Andy WarholMovie | Self | 68 |
| 1990 | Scenes from the Life of Andy Warhol: Friendships & IntersectionsMovie | Self | 68 |
| 1986 | He Stands in a Desert Counting the Seconds of His LifeMovie | Self (archive footage) | 64 |
| 1985 | Home Movies 1971-81Movie | — | 63 |
| 1984 | Persistence of VisionMovie | Self | 62 |
| 1981 | Strong MedicineMovie | — | 59 |
| 1980 | No. 18: MahagonnyMovie | Self | 58 |
| 1979 | Paradise Not Yet LostMovie | Himself | 57 |
| 1978 | CinématonMovie | N°1590 | 56 |
| 1978 | Notes for JeromeMovie | Self | 56 |
| 1978 | Four ShadowsMovie | — | 56 |
| 1976 | Lost, Lost, LostMovie | Self | 54 |
| 1974 | ‘Rameau’s Nephew’ by Diderot (Thanx to Dennis Young) by Wilma SchoenMovie | — | 52 |
| 1973 | Notes on the Buffalo Conference: “Autobiography in American Independent Cinema”Movie | — | 51 |
| 1972 | ImagineMovie | Self | 50 |
| 1972 | Reminiscences of a Journey to LithuaniaMovie | Self | 50 |
| 1972 | Going HomeMovie | Himself | 50 |
| 1971 | Up Your Legs ForeverMovie | Self - Legs | 49 |
| 1971 | Journey to LithuaniaMovie | Himself | 49 |
| 1971 | Ricky Leacock Visit, April 15, 1971Movie | Self | 49 |
| 1969 | FilmmakersMovie | Himself | 47 |
| 1968 | Diaries, Notes, and SketchesMovie | Self | 46 |
| 1968 | Diaries, Notes, and SketchesMovie | self | 46 |
| 1968 | A Matter of BaobabMovie | — | 46 |
| 1968 | Underground New YorkMovie | Self | 46 |
| 1967 | Poem PostersMovie | Self | 45 |
| 1966 | GalaxieMovie | Self | 44 |
| 1965 | Andy Warhol Screen TestsMovie | Self | 43 |
| 1965 | DirtMovie | — | 43 |
| 1965 | EmpireMovie | Self (uncredited) | 43 |
| 1964 | Award Presentation to Andy WarholMovie | Self | 42 |
| 1962 | Diane the Zebra WomanMovie | — | 40 |
| 1961 | The Sin of JesusMovie | — | 39 |
