The 2016 season is Santos Futebol Clube's one hundred and fourth season in existence and the club's fifty-seventh consecutive season in the top flight of Brazilian football. As well as the Campeonato Brasileiro, the club competes in the Copa do Brasil and the Campeonato Paulista.

On 8 May, Santos won their 22nd Campeonato Paulista title beating Audax 2–1 on aggregate in the final. On 6 November, after a 2–1 win against Ponte Preta, the club ensured their qualification to 2017 Copa Libertadores; fourteen days later, in a 2–2 draw against Cruzeiro, the club granted his place in the group stage of the competition. Santos ended the Campeonato Brasileiro in the 2nd position, 9 points behind leaders Palmeiras.

Note: Flags indicate national team as defined under FIFA eligibility rules. Players may hold more than one non-FIFA nationality.

Last updated: 12 December 2016
Source: Match reports in Competitive matches, Soccerway, Campeonato Brasileiro, Campeonato Paulista, Copa do Brasil

Last updated: 12 December 2016
Source: Match reports in Competitive matches

As of 21 November 2016
Source: Campeonato Brasileiro, Campeonato Paulista, Copa do Brasil = Number of bookings; = Number of sending offs after a second yellow card; = Number of sending offs by a direct red card.

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