But QPR captain denies same charge against Manchester City's Kompany.
Barton accepts violent conduct charge against Aguero
The 29 year old's future at QPR is in doubt after he elbowed Carlos Tevez, kicked Aguero and appeared to headbutt Kompany during Rangers' 3-2 defeat at the Etihad Stadium on Sunday.
Barton was given extra time to respond to the charges levelled against him and the Football Association revealed he has accepted only one of the violent conduct charges.
"Joey Barton has accepted an FA charge against him for violent conduct against Manchester City's Sergio Aguero," the FA statement read.
"The Queens Park Rangers player has denied a second charge of alleged violent conduct against Manchester City's Vincent Kompany.
"The player has requested a personal hearing, the date of which has yet to be set.
"Both charges against Barton are in relation to Sunday's match against Manchester City at the Etihad Stadium.
"Following the player's dismissal in the 54th minute of the fixture, there followed two incidents involving Aguero and Kompany.
"As Barton had already been dismissed, both of these incidents fell outside of the jurisdiction of the referee."