(*): W=Win, N=Nomination
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2015 | N | Best Guest Performance in a Television Series | American Horror Story: Freak Show (2014) (TV) | - |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2014 | N | Best Depiction of Nudity, Sexuality, or Seduction | Gone Girl (2014) | Rosamund Pike, Rosamund Pike |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2011 | W | Best Supporting Actor in a Comedy Series | How I Met Your Mother (2005) (TV) | - |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2014 | W | Outstanding Actor in a Musical | "Hedwig and the Angry Inch" | - |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2010 | W | Outstanding Guest Actor in a Comedy Series | Glee (2009) (TV) | - |
| 2010 | N | Outstanding Supporting Actor in a Comedy Series | How I Met Your Mother (2005) (TV) | - |
| 2009 | N | Outstanding Supporting Actor in a Comedy Series | How I Met Your Mother (2005) (TV) | - |
| 2008 | N | Outstanding Supporting Actor in a Comedy Series | How I Met Your Mother (2005) (TV) | - |
| 2007 | N | Outstanding Supporting Actor in a Comedy Series | How I Met Your Mother (2005) (TV) | - |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2015 | W | TV Musical Performance of the Year | "Sugar Daddy," The Tony Awards | - |
| 2015 | N | Wilde Artist of the Year | - | - |
| 2014 | N | TV Musical Performance of the Year | The 67th Annual Tony Awards [For his performance of the song "Bigger"] | - |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2010 | N | Best Performance by an Actor in a Supporting Role in a Series, Mini-Series or Motion Picture Made for Television | How I Met Your Mother (2005) (TV) | - |
| 2009 | N | Best Performance by an Actor in a Supporting Role in a Series, Mini-Series or Motion Picture Made for Television | How I Met Your Mother (2005) (TV) | - |
| 1992 | N | Best Performance by an Actor in a TV-Series - Comedy/Musical | Doogie Howser, M.D. (1989) (TV) | - |
| 1989 | N | Best Performance by an Actor in a Supporting Role in a Motion Picture | Clara's Heart (1988) | - |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2014 | W | - | - | - |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2019 | N | Favorite Male TV Star | A Series of Unfortunate Events (2017) (TV) | - |
| 2014 | N | Favorite Movie Actor | - | - |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2014 | N | Favorite Comedic TV Actor | - | - |
| 2013 | N | Favorite Comedic TV Actor | - | - |
| 2012 | W | Favorite TV Comedy Actor | - | - |
| 2011 | W | Favorite TV Comedy Actor | How I Met Your Mother (2005) (TV) | - |
| 2011 | N | Favorite TV Guest Star | Glee (2010) (TV) | - |
| 2010 | N | Favorite TV Comedy Actor | - | - |
| 2008 | N | Favorite Scene Stealing Star | How I Met Your Mother (2005) (TV) | - |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2010 | N | Best Performance in a Comedy Series | How I Met Your Mother (2005) (TV) | - |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2018 | N | Actor in a Series, Comedy or Musical | A Series of Unfortunate Events (2017) (TV) | - |
| 2011 | N | Best Actor in a Supporting Role in a Series, Mini-Series or Motion Picture Made for Television | How I Met Your Mother (2005) (TV) | - |
| 2010 | N | Best Actor in a Supporting Role in a Series, Miniseries or Motion Picture Made for Television | How I Met Your Mother (2005) (TV) | - |
| 2009 | N | Best Actor in a Supporting Role in a Series, Mini-Series or Motion Picture Made for Television | How I Met Your Mother (2005) (TV) | - |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2012 | N | Choice TV Actor: Comedy | How I Met Your Mother (2005) (TV) | - |
| 2009 | N | Choice TV Actor: Comedy | How I Met Your Mother (2005) (TV) | - |
| 2008 | N | Choice TV Actor: Comedy | How I Met Your Mother (2005) (TV) | - |
| 2007 | N | Choice TV Actor: Comedy | How I Met Your Mother (2005) (TV) | - |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2009 | N | Individual Achievement in Comedy | How I Met Your Mother (2005) (TV) | - |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2014 | W | Best Performance by an Actor in a Leading Role in a Musical | "Hedwig and the Angry Inch" | - |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 2011 | W | Television (On 15 September 2011; At 6243 Hollywood Blvd.) | - | - |
| Year | * | Category | Works | Shared |
|---|---|---|---|---|
| 1992 | W | Best Young Actor Starring in a Television Series | Doogie Howser, M.D. (1989) (TV) | - |
| 1991 | W | Best Young Actor Starring in a Television Series | Doogie Howser, M.D. (1989) (TV) | - |
| 1990 | W | Best Young Actor Starring in a Television Series | Doogie Howser, M.D. (1989) (TV) | - |
| 1989 | N | Best Young Actor in a Motion Picture - Drama | Clara's Heart (1988) | - |
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