Later, "El Pecoso" (Freckle Face) stood out in his work for another big name of Colombian football, Independiente Santa Fe, the club that he directed from 1999 to 2001.

In his second stage as the head of "Los Cardenales", in spite of having an exceptional performance in the Tournament Opening, serious differences with the surroundings of the club motivated his exit in 2008.

After the 2011 and 2012 seasons, he was not able to make any remarkable achievements, and he was driven to his dismissal due to economic problems, constant payroll cuts, and differences with the board of directors and some players.

Five days into the 2014 season's closing tournament, Castro took control of the Atlético Huila, replacing the technical director Virgilio Puerto, who had been fired from the team due to bad results.

After having finalized his commitments with Atlético Huila, he terminated his agreement with the club in December 2014 so he could be hired for the 2015 season by the Deportivo Cali, the team that had returned like a helmsman after twelve years.