The Spanish football federation opened disciplinary proceedings against the clubs Tuesday, six days after Barcelona won the trophy in a fight-marred finale.
Mourinho walked toward Barcelona assistant coach Tito Vilanova and appeared to gouge him in the eye during an on-field melee. Mourinho apologized Tuesday only to fans in a statement posted on Madrid's website.
Under federation rules, the Portuguese coach could be banned between four to 12 games. Vilanova could be sanctioned for four games after retaliating with a push.
Based on reporting by The Associated Press.