Phillies starter A.J. Burnett left in the fourth inning because of a sore groin, but Philadelphia chased Fernandez (2-1) with three runs in the fifth en route to its first home win of the season.
Fernandez, last season's NL Rookie of the Year, was tagged for eight hits and a career-worst six earned runs in four-plus innings. The right-hander walked four, matching a career high, and struck out six. He gave up only one run over 18 innings in three appearances against Philadelphia last season.