In his first season with Braga, Custódio battled for first-choice status with Brazilians Leandro Salino and Vandinho, but managed to appear in nearly 25 official games. On 5 February 2011 he scored from close range in a 2–1 away win against C.S. Marítimo, helping his team finish fourth in the league. On 5 May he netted arguably the most important goal of his career, heading from a corner kick for the game's only in a home victory over S.L. Benfica in the UEFA Europa League semi-finals second leg, with Braga qualifying for the final on the away goals rule.