The following year, the Minnesota Twins drafted him in the 23rd round out of Gulf Coast Community College, but he again opted against signing.

He ultimately earned a 1-3 record with a 4.30 ERA in 47 games; since he remained on the club's roster for the entire season, he continued in the Phillies' organization thereafter per Rule 5 regulations.

Herndon spent the majority of the 2011 season with Phillies, aside from a brief stint with the Triple-A Lehigh Valley IronPigs in which he went 2-0 with a 2.45 ERA and 1 save in 8 games.

[3] Herndon was subsequently designated for assignment by the Blue Jays on October 31, and claimed by the New York Yankees on November 6.

[5] Herndon signed with the Sioux City Explorers of the American Association of Independent Professional Baseball after his release.