In 2005, Aguila was named the Marlins' fifth outfielder (behind Miguel Cabrera, Juan Pierre, Juan Encarnación, and Jeff Conine), but was used mainly in a pinch-hitting role. He logged only 16 at bats in the first two months of the season, and he was sent back to Albuquerque on May 27. While in Albuquerque, he regained his everyday role as the team's center fielder. He batted .351 with 7 home runs and 25 RBI in 35 games with Albuquerque, and he was promoted back to the Major Leagues on July 7, when the Marlins placed Josh Willingham on the disabled list. He spent the rest of the season in the Major Leagues, mainly as a pinch hitter; he started only 12 games all year, most of them while Encarnación was injured. He finished the 2005 season with a .244 batting average, no home runs, and 4 RBI in 78 at bats. Following the 2005 season, he played for Gigantes del Cibao in the Dominican Winter League.