On January 2, 2009, news agencies reported that Scott Proctor had agreed to a contract with the Florida Marlins. In 2008, Proctor appeared in 41 games and finished the season with a 6.05 earned run average and a 2-0 record for the Los Angeles Dodgers. MLB.com: Proctor agrees to terms with Marlins (January 2, 2009)

Still playing in the minors, Proctor was traded on July 31, 2003 to the New York Yankees. He made his MLB debut the following season with the Yankees on April 20, 2004. Proctor continued to split the 2004 and 2005 seasons with the Yankees and the minors, including his first post season appearance in 2005. He joined the Yankees in the American League Divisional Series, which they lost to the Los Angeles Angels of Anaheim.

Proctor earned a full roster spot with the Yankees in 2006, playing in 83 games, pitching 102.3 innings and finishing the season with a 3.52 earned runs average. He joined the Yankees again in 2007 for 52 games, then was traded to the Los Angeles Dodgers on July 31, 2007.MLB.com: Scott Proctor