Born in Bom Sucesso do Sul, Paraná, Vagner graduated with Paulista's youth setup.

He made his senior debut on 1 February, starting in a 4–1 home routing over Guaratinguetá for the Campeonato Paulista championship.

[1] After loans at Vila Nova[2] and Criciúma,[3] Vagner joined Ituano on 8 November 2012.

[5] On 22 December, after appearing in 36 matches and being promoted to Série A, he renewed his link with the club.

[6] On 10 December 2015, after his side was immediately relegated back to the second tier, Vagner signed a four-year deal with Palmeiras.