When Jeff and Lester arrive at the hospital, the male nurse calls "Dr. Adler, room 315 please" through the speakers. This is a reference to Ali Adler, who worked as a writer for Chuck for 3 seasons.
The man who designed the fake eye is named 'Eimacher'. Macher loosely translates to 'maker' in English from German. Thus he is the Eye Maker. Literally translated it would be 'egg maker'.
The televisions in the Buy More always show something related to the episode they appear in. When Awesome is getting Ellie's Push Mix from Chuck in the Buy More, the TVs behind Awesome show a series of babies.
This episode was originally meant to be the season finale, until NBC renewed the season for an additional eleven more episodes.
"The Contessa" was filmed aboard the SS Lane Victory, a museum ship in the San Pedro area of Los Angeles. The Lane Victor is an American Victory-class cargo ship used in World War II, the Korean War and Vietnam War.