Canteros started his professional career for Vélez Sársfield on 8 February 2009, coming on as a substitute in his team's 0–0 draw with Independiente for the first fixture of the 2009 Clausura.[3] He played only one more game in that tournament, the 8th fixture against Banfield, that his team went on to win.
During the 2011 Clausura, and due to Leandro Somoza's departure from Vélez, Canteros started playing more regularly for the first team. He scored his first professional goal in a 2–3 defeat to Quilmes.[4]
In the beginning of 2014 Canteros' name was linked with Flamengo as a possible substitute for Elias, who was returning to Sporting CP as his loan finished. However, Canteros continued to play for Vélez Sarsfield, as Flamengo wanted a loan and the Argentine club was only willing to a permanent move.[5][6]
Flamengo
On 3 July 3, 2014 Flamengo paid a fee of US$2.2 million for Canteros, and the player signed a 3-year contract.[7] His debut for the new club came on 27 July in a 1–0 derby win against Botafogo at the Maracanã, as he came from the bench and played 27 minutes.[8] Few days later, on 3 August, Héctor played his first match as a starter against Chapecoense at Arena Condá, which Flamengo lost 0–1.[9]