High Court judge Sir David Eady revealed the developments during the latest stage of the dispute between West Yorkshire Police and Leeds, although the club say they are still owed over £800,000.
Two years ago Eady ruled that the force overcharged for 'special police services' over three seasons between 2009 and 2012, following a High Court hearing.
West Yorkshire Police and Leeds remain in dispute over the exact amount that should be repaid to the club.
Detail of the repayments came to light in a written analysis following a further High Court hearing in London in June.
"In July 2012, I ruled that Leeds United Football Club had been charged for special police services over the three preceding football seasons, in respect of home matches, on a basis that was in part unlawful," Eady said.
"It thus became necessary to find a methodology by which to calculate the appropriate rebate. It did not prove possible for the parties to agree a formula. Each proposed a distinct methodology."
"West Yorkshire Police has paid Leeds United Football Club £1,238,816.61 which is said to represent the total loss including interest," he added.
"Leeds United Football Club, on the other hand, seeks a further £844,016.36 plus interest (to include claims in respect of 2012-13 and 2013-14)."
The original litigation had centred on the policing of land near the ground not owned, leased or controlled by Leeds.
Eady had ruled that the services rendered fell within the normal police duty to keep the peace.