Bradford City and Millwall have been charged by the Football Association for failing to ensure their players conducted themselves in an orderly fashion and/or refrained from provocative behaviour.
The charge refers to an incident in the 28th minute of last week's FA Cup third round replay, which Bradford won 4-0 to set up a fourth round meeting with Chelsea.
Bradford manager Phil Parkinson and assistant Steve Parkin have also been charged for improper conduct.
All parties have been given until 6pm on January 21st 2015 to respond to the charges.
Millwall chairman John Berylson has promised to refund every one of the 456 Lions fans who travelled to the humiliating FA Cup loss at Bradford.
The Millwall boss, Ian Holloway, apologised to the supporters after his side was thumped 4-0 at Valley Parade.
A statement on the Millwall website read:
The police have released 11 new images of football fans they want to question following violence at Wembley during the FA Cup semi-final between Millwall and Wigan.
The disturbances took place in the Millwall supporter section and 43 people have so far been arrested – this is the third photo appeal.
The release of the new pictures follows dawn police raids last week which resulted in three arrests.
After police dawn raids this morning led to the arrests of three people wanted in connection with violence at an FA Cup match between Millwall and Wigan at Wembley, a further man has handed himself in.
The 34-year-old was arrested on suspicion of violent disorder at a south London police station.
The Metropolitan Police have released CCTV images of people they want to trace in connection to violence and disorder at the Millwall vs Wigan FA Cup semi final match. Earlier today, police arrested three men in dawn raids in connection with the violence.
Note: Images removed on police request_
Police carried out dawn raids to arrested three men in connection with violence at an FA Cup match between Millwall and Wigan.
The men, aged 21, 22 and 27, were arrested at addresses in London by officers from Operation Arrowtip, which targets football-related crime.
So far 23 people have been arrested in relation to violence at the semi-final at London's Wembley Stadium on 13th April, during which Millwall fans attacked police and fought among themselves inside and outside the ground.
Police have arrested three men in dawn raids in connection with violence at an FA Cup match between Millwall and Wigan.
Note: Images removed on police request
Police have asked for the public's help in tracking down 10 football fans suspected of being involved in disorder at last weekend's FA Cup semi-final between Millwall and Wigan.
Saturday's showpiece match at Wembley Stadium was marred by Millwall supporters attacking police and fighting among themselves inside and outside the ground.
Twelve Millwall supporters and two Wigan fans were arrested on the day, police said.
Images of a further 10 supporters have been issued by officers from Operation Arrowtip, Scotland Yard's response to football-related crime.
Anyone who recognises someone in the pictures is asked to contact police on 020 8246 0076 or Crimestoppers, anonymously, on 0800 555 111.