Special Counsel Robert Mueller, who is probing Russian meddling in the 2016 U.S. presidential election and possible collusion between Moscow and the Trump campaign, said in the filing that Mr Manafort lied to investigators in a series of interviews after signing a plea agreement.
"After signing the plea agreement", the filing read, "Manafort committed federal crimes by lying to the Federal Bureau of Investigation and the Special Counsel's Office on a variety of subject matters, which constitute breaches of the agreement".
"A breach relieves the government of any obligations it has under the agreement".
Mueller's team did not spell out what Manafort lied about.
Manafort's plea deal stipulates: 'If prosecutors determine that Manafort had failed to cooperate fully, has intentionally given false, misleading or incomplete information or testimony, he will not be released from his pleas of guilty but the Government will be released from its obligations'.
He was convicted on eight counts of bank fraud and tax fraud in August and then made a deal with prosecutors to avoid a second trial in Washington D.C. on additional charges.
As part of his plea deal, Manafort admitted to committing a host of money laundering and foreign lobbying crimes and fraud, giving the federal prosecutors ample leverage over him.
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The charges stemmed from political work Manafort had done for the government of Ukraine prior to his accepting the position as campaign manager for then-candidate Donald Trump.
One, a mysterious professor by the name of Joseph Mifsud, told Papadopoulos that Moscow had dirt on Trump's election rival, Democrat Hillary Clinton.
Emails and testimony by other witnesses showed that Papadopoulos had repeatedly reported his Russian Federation contacts and meetings to the Trump campaign, raising suspicions of collusion. In return, Mueller promised to argue for leniency at sentencing.
But immediately after that, Papadopoulos declared he had been entrapped by United States and foreign intelligence services and alleged that Mifsud was a CIA operative who was part of a broader campaign to damage Trump.
Manafort, 69, now faces a stiff prison sentence as the result of his August conviction in Virginia and for his guilty plea in a separate Washington, DC, case where he pledged to help prosecutors.
He faced up to 10 years in prison under the deal and will also forfeit four of his properties and the contents of several bank accounts.
Manafort was convicted on 8 counts in the Eastern District of Virginia and sentencing in that case is scheduled for early February.