Emmanuel Adebayor is facing the possibility of an extended ban after the Football Association charged him on two counts over his conduct in Saturday's highly charged encounter with Arsenal at Eastlands.
Adebayor has until 6pm on Wednesday to respond to the accusation of violent conduct for his challenge on Robin Van Persie, and another count of improper conduct, for his celebrations in front of the travelling supporters.
Television replays clearly show Adebayor's boot making a second movement towards Van Persie's face. City also now know that referee Mark Clattenburg would have sent Adebayor off if he had seen the severity of the challenge at the time.
In the circumstances, City are unlikely to contest that charge and Hughes will now be preparing for Saturday's Manchester derby at Old Trafford without his £25 million striker.
In addition to this weekend's top of the table clash, Adebayor would also miss next Wednesday's Carling Cup tie with Fulham, plus a Premier League game with West Ham on September 28 if a three-match ban was handed down.
City may have more success in challenging the charge of improper conduct though, which followed Adebayor's decision to race the full length of the field and celebrate his goal in Saturday's match in front of the away supporters, who used to sing his name.
Experienced football figures, including Gareth Southgate and Roy Keane, have come out in support of Adebayor, who was abused by the Arsenal fans every time he touched the ball.
The frostiness of that relationship dates back 14 months, when Adebayor claimed he wanted to leave the Emirates Stadium to play for "a big club'', which, that summer at least, did not happen. If City can use the reception Adebayor received as a mitigating factor, the Togo forward may escape with a fine.
But there is also a possibility an independent disciplinary panel may deem Adebayor acted irresponsibly and add more matches, as many as three, to any initial suspension.
Certainly, the FA will be speaking with both the Professional Footballers Association and League Managers Association to emphasise the responsibility of officials and players to maintain public order.
Greater Manchester Police were distinctly unimpressed by Adebayor's conduct and one steward was injured in the disturbances that followed, which the FA will also act upon.
"We have asked the GMP and the clubs to identify those supporters involved in any violent and aggravating behaviour. The FA would like to see anyone found guilty of such behaviour face action through the legal system and banning orders from football,'' continued the statement.
"The FA would like to thank the Manchester City FC stewards for the way they managed a very difficult situation and to pass on sincere best wishes to the steward who was injured during the game. We will continue to work with the LMA and PFA in particular to help remind players of their responsibilities, especially in highly charged situations.''