Plea deals agreed with the man accused of masterminding the Sept 11 attacks and two accomplices held at the US military prison at Guantanamo Bay, Cuba, were valid, according to a judge's ruling reported by the New York Times on Wednesday regarding agreements that had been revoked by the Pentagon.

ALSO READ: Pentagon chief revokes plea deals with three Sept 11 suspects

On July 31, the Pentagon said plea deals had been entered into with the trio, including Khalid Sheikh Mohammed, but two days later, US Defense Secretary Lloyd Austin rescinded them.

Austin "acted too late and beyond the scope of his authority", the New York Times reported, citing a decision by a military judge.