[6] At the end of spring training in 2013, the Astros assigned Goebbert to the Oklahoma City RedHawks of the Triple–A Pacific Coast League.

Before he could play for Oklahoma City, the Astros traded Goebbert to the Oakland Athletics in exchange for Travis Blackley.

On May 15, 2014, the Athletics traded Goebbert to the Padres for Kyle Blanks and a player to be named later,[5][9] later identified as Ronald Herrera.

[10] On June 19, 2014, Goebbert was called up from Triple-A El Paso to replace the injured first baseman Yonder Alonso.

Goebbert had a pinch-hit RBI single in his first Major League plate appearance on June 20 and made his first start in left field the next day.

Goebbert returned to the Padres on August 12 when Everth Cabrera went to the disabled list,[13] and he remained with the team for the rest of the season.