Since 1956, Aguila have played their home games at Estadio Juan Francisco Barraza. The stadium is one of the biggest stadiums in El Salvador. Aguila holds a long-standing rivalry with neighbours Dragón, known as the San Miguel derby. Aguila also has a rivalry with FAS, known as El Classico (English: The Classic).
Club Deportivo Águila was founded on 15 February 1926, in the City of San Miguel, by a group of young people. The first club President was Victor Vanegas. The major goal of the club was first to establish a baseball team, and later develop football and basketball teams. At the beginning, baseball and football were not as successful as basketball with the team dominating in both El Salvador as in neighbouring countries.
In 1956, a group met in San Miguel and decided to form a football team named Club Deportivo Águila. Early players included Juan Francisco Barraza, Esteban Blanco, Salvador Hernandez, Juan Merthem, Atilio Pineda, Manuel Larios, and Rodolfo Fuentes.
During its time in the lower leagues, it fought for the affections of the San Miguel people alongside rival Dragón, but when they were promoted to the Liga, it attracted a following not only from San Miguel but also from the entire country. Proof of this was demonstrated by the fact that the teams sold more tickets when the local club played against Águila.
C.D. Águila ranks second in the number of championships won in El Salvador with fifteen titles. The two most successful managers in the club history are Conrado Miranda (1959, 1975, 1976) and Argentinian Hugo Coria (Apertura 1999, Apertura 2000, Clausura 2001) with three titles each, Juan Francisco Barraza (1972, 1983) and Victor Manuel Ochoa (1963, 1964) with two titles each, while Honduran Carlos Padilla (1960), Brazilian Zózimo (1968), Chilean Hernán Carrasco Vivanco (1986) and Serbian-Salvadoran Vladan Vićević (Clausura 2006) won one title each. They were also winners of the Copa President in 2000 and won the CONCACAF Champions League.
The members of the team that conquered the first championship in 1959 were Luis Alberto Lopez, Rodolfo Fuentes, Justiniano Fernando Jimenez, Manuel Larios, Raul Vasquez, Raul Bonilla, Raul Lizano, Juan Francisco Barraza, Juan Antonio Merlos, and Saul Molina.
Aguila have had numerous presidents over the course of their history, some of which have been the owners of the club, others have been honorary presidents, here is a complete list of them.