- Clean Hands
2026 Executive Producer
- Girls Like Girls
2026 Curtis
- Scrubs
2026 Director
- Rooster
2026 Director
- Garden State - The 20th Anniversary Concert
2025 Writer
- Long Story Short
2025 (voice)
- French Girl
2024 Gordon Kinski
- Bad Monkey
2024 Israel 'Izzy' O'Peele
- A Little White Lie
2023 Real Shriver
- Bookie
2023 Locko Rocko (uncredited)
- The Mattachine Family
2023 Executive Producer
- A Good Person
2023 Director
- Shrinking
2023 Director
- Moonshot
2022 Leon Kovi
- Cheaper by the Dozen
2022 Paul Baker
- Obi-Wan Kenobi
2022 Freck (voice)
- Solos
2021 Director
- Percy
2020 Jackson Weaver
- The Comeback Trail
2020 Walter Creason
- Ted Lasso
2020 Director
- In the Time It Takes to Get There
2019 Director
- Alex, Inc.
2018 Director
- The Disaster Artist
2017 Zach Braff (uncredited)
- Going in Style
2017 Director
- Just Say Goodbye
2017 Thanks
- In Dubious Battle
2016 Connor
- Video Games: The Movie
2014 Executive Producer
- Wish I Was Here
2014 Director
- Undateable
2014 Zach
- BoJack Horseman
2014 Zach Braff (voice)
- The Internet's Own Boy: The Story of Aaron Swartz
2014 Executive Producer
- Oz the Great and Powerful
2013 Frank / Finley
- My Journey in Oz
2013 Thanks
- The Color of Time
2012 Albert
- Good Mythical Morning
2012 Himself
- The High Cost of Living
2011 Henry
- The Exes
2011 Chuck Feeney
- Crazy Hair Day
2009
- Cougar Town
2009 Pizza Guy (uncredited)
- Scrubs: Interns
2009 John "J.D." Dorian
- Scrubs: Med School
2009 John "J.D" Dorian
- Wallace's Lists
2007
- The Last Kiss
2006 Michael
- The Ex
2006 Tom Reilly
- Chicken Little
2005 Chicken Little (voice)
- Garden State
2004 Director
- My Charlie Brown Christmas
2003 J.D. as Charlie Brown
- Arrested Development
2003 Phillip Litt
- It's a Very Merry Muppet Christmas Movie
2002 Dr. John "J.D." Dorian
- Clone High
2002 Paul Revere (voice)
- Scrubs
2001 Director
- Blue Moon
2000 Young Fred
- Endsville
2000 Dean
- Getting to Know You
1999 Wesley
- TRL
1998
- Lionel on a Sun Day
1997 Director
- Manhattan Murder Mystery
1993 Nick Lipton
- The Baby-Sitters Club
1990 David Cummings
