Cooper became the tenth actor to receive an Academy Award nomination in three consecutive years.
In 2014, he portrayed Joseph Merrick in a Broadway revival of The Elephant Man, garnering a nomination for the Tony Award for Best Actor in a Play.
In the television series Alias (2001–06), Cooper achieved some success for the role of Will Tippin, a local reporter for a newspaper and the best friend of Jennifer Garner's character, Sydney Bristow.
He guest-starred in the short-lived TV series Miss Match and played the part of cowboy and race horse trainer Morgan Murphy in the television film The Last Cowboy, which aired on the Hallmark Channel in January 2003.
In 2011, Cooper starred in the techno-thriller Limitless, based on the 2001 novel The Dark Fields by Alan Glynn.