The league's relationship with Carlton and Granada became increasingly strained during the last months of ITV Digital's life, as the two ITV companies failed to stump up an outstanding payment of £178m owed to the league for the rights to televise football matches.
The dispute is set to end in court next month, with the league threatening to sue the two companies for as much as £500m to cover the outstanding payments, plus loss of revenues league division clubs will suffer if their matches are not screened on TV.
In a speech to Football League chairmen, Allen singled out Green and Allen for criticism.
He said: "Mr Green and Mr Allen have put many of our clubs at risk. The have alarmed their own staff, all football administrators, managers, players and fans alike.
"They have embarrassed government. They have damaged the reputation of public service broadcasting."
Harris also questioned the suitability of the chairmen to run the country's largest commercial broadcaster.
He said: "How can you lose £1.2bn and still be entitled to keep highly paid jobs? I believe what Mr Green and Mr Allen have orchestrated is quite plainly degrading. We will also not rest until these companies recognise and face up to their responsibilities.
"We will also not rest until the pressure for new and responsible directors to replace Mr Green and Mr Allen becomes irresistible."
Yesterday, it was reported that Carlton and Granada are also facing a backlash from angry former ITV Digital employees who claim that the two companies, as joint owners of ITV Digital, have failed to honour their contracts.
Carlton and Granada are being threatened with court action from moe than 100 ITV Digital staff who were based at the company's headquarters in Battersea.
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