In 2003 he joined Série A side Ponte Preta, and scored his first goal for the club on 8 October in a 2–2 home draw against Atlético Paranaense.

On 21 January 2014, Rafael Marques switched teams and countries again, joining Henan Jianye in the Chinese Super League.

[6] However, he would spend the campaign as a backup to Róger Guedes and Gabriel Jesus as his side lifted the league trophy after 22 years.

In March 2017, after the arrival of Miguel Borja, Rafael Marques was being deemed surplus to requirements by manager Eduardo Baptista, being transfer-listed by the club.

[7] On 13 May 2017, Rafael Marques signed an 18-month contract with fellow top tier club Cruzeiro, with Mayke moving in the opposite direction on loan.