The Manchester City striker has been charged with violent conduct for scraping his studs down the face of Robin van Persie in the 4-2 victory over the Gunners on Saturday.
Referee Mark Clattenburg missed the incident during the match but has now stated that he would have sent Adebayor off if he had witnessed the offence.
Clash: Emmanuel Adebayor appears to stamp on Robin van Persie
Adebayor, who has until 6pm on Wednesday to appeal against the charge, is expected to be banned for three games if found guilty.
Adebayor, who left Arsenal for City in a £25million summer move, also faces a separate charge of improper conduct for racing down the length of the pitch to celebrate in front of the Gunners fans.
An FA statement read: 'The Football Association today issued two charges against Manchester City’s Emmanuel Adebayor following Saturday’s Premier League fixture between Manchester City and Arsenal.
'Under the fast-track disciplinary process, Adebayor has been charged with violent conduct following an incident with Robin van Persie, which resulted in the Arsenal player receiving facial injuries.
'Referee Mark Clattenburg has advised The FA that he did not see this incident, but has confirmed that had he done so, he would have sent Adebayor off for violent conduct. The player has until 6pm on Wednesday evening to respond to the charge.
'Adebayor has also been charged with improper conduct following his actions when turning and running the full length of the pitch to celebrate in front of the Arsenal supporters after scoring.
'The Greater Manchester Police have written to The FA with their views on this incident. A separate date will now be arranged for a commission to consider Adebayor’s goal celebration.
Full force: Van Persie was left with a cut face
'We have also 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.
'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.'
Outrage: Adebayor celebrates his goal in front of the Arsenal fans
If found guilty, Adebayor will be suspended from Sunday's Manchester derby at Old Trafford, plus a Carling Cup tie with Fulham and a Premier League encounter with
West Ham on September 28.
Unless Adebayor can successfully argue his case, he is almost certain not to be available for City at least until their trip to Wigan on October 18.
The FA would then need to set up a disciplinary panel to hear the second case, which could bring anything up to an additional three-match suspension.
Adebayor will hope for leniency in that matter though, given the aggravation he
received from the Arsenal supporters. (dailymail)