Aloísio retired from football in June 2001 at nearly 38 years of age, having won seven leagues, five cups and seven supercups with his main club and appearing in more than 400 official matches. Having begun working under him in January 2002, he was part of José Mourinho's coaching staff in the 2003–04 campaign as Porto won both the domestic and the UEFA Champions League; after one more year, now as assistant to Spaniard Víctor Fernández, he was appointed head coach of the reserve team in the third division.