Special counsel Robert Mueller secured an indictment earlier this month saying Manafort attempted to reach witnesses with an encrypted messaging program while he was awaiting trial in an attempt to "suborn perjury", according to one of those witnesses.
Manafort is the most likely figure to have had other contact with Russian-related figures.
Mr Manafort has long-standing ties to a pro-Russian political party in Ukraine and a Russian oligarch close to the Kremlin.
A June 8 indictment accused Manafort and a longtime aide, Konstantin Kilimnik, with tampering with witnesses about their past lobbying for Ukraine.
Mueller's team this month asked the judge to revoke Manafort's bail.
Later, Trump took to Twitter, writing "Didn't know Manafort was the head of the Mob".
"When the whole thing is over, things might get cleaned up with some presidential pardons", Trump attorney Rudy Giuliani told the New York Daily News on Friday.
At Friday's hearing, the judge said she was not revoking Manafort's bail as punishment but because his attempts to contact witnesses constituted a danger to the court's integrity.
"This is not middle school", she told lawyers. "I can't take his cellphone", she said, noting that if she listed 56 witnesses, she couldn't be certain he wouldn't contact the 57th. He was among the first to be indicted by Mueller, who is heading up the main investigation into alleged Russian election meddling.
Mueller is prosecuting Manafort in two venues, in the District of Columbia on charges of lobbying for foreign governments without complying with the Foreign Agents Registration Act (FARA), and in Virginia on charges of tax and bank fraud for his lobbying work dating back a decade.
"You will see if you do any fact-checking that I was the person that negotiated the framework which is based upon which Ukraine is now a part of Europe".
The revocation of Manafort's bail was a fresh sign of the looming collision course between Mueller and Trump, with the White House increasingly anxious that the president could face obstruction of justice charges and an impeachment effort in Congress. Kilimnik is believed to be in Moscow - and therefore safe from arrest because Russian Federation does not extradite its citizens.
Kilimnik, 48, has previously declined to comment on the allegations and denied being connected to Russian intelligence agencies.
Prosecutors say Mr Manafort and Mr Kilimnik tried to get the two witnesses to say that lobbying work carried out by clandestinely paid former politicians only occurred in Europe and not the United States, a contention the two witnesses said they knew to be false. Devlin Barrett writes about national security and law enforcement for The Washington Post.