2016–17 1. FC Magdeburg season

The 2016–17 1. FC Magdeburg season was their second season in the 3. Liga. As in the previous season, the side finished fourth overall, qualifying for the 2017–18 DFB-Pokal. In addition, Magdeburg won the Saxony-Anhalt Cup, increasing their record to 11 wins in that competition. Their run in the 2016–17 DFB-Pokal was cut short, when the team lost to eventual finalists Eintracht Frankfurt on penalties in the first round.

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