"When you look at what's going on, I think it's a very sad day for our country", he said.
After a trial spanning almost three weeks, Manafort, 69, is awaiting a verdict on 18 tax evasion and bank fraud charges. "I don't feel right if I release their names", he said, adding that because of threats against him, "The Marshals go where I go".
Trump made his comments while the jury of six women and six men were deliberating behind closed doors on Friday morning. Judge Ellis read the note aloud to court - which asked to leave at 5pm instead of 5.30pm.
Jury deliberations in the case began Thursday.
The jury's been deliberating.
Ellis explained that one aspect of the transcripts will remain sealed so as not to interfere with Department of Justice Special Counsel Robert Mueller's ongoing investigation into whether Trump campaign officials colluded with Russian officials to steal the presidency from Hillary Clinton.
District Judge TS Ellis also told a court that he feared for the "peace and safety of the jurors".
He is then believed to have lied to banks to get loans when the money ran out - and is now facing 18 felony counts on tax evasion and bank fraud. Ellis said he would allow lawyers for the media outlets to argue the motion on Friday afternoon.
It was the "reasonable doubt" question that caught some legal experts most by surprise as it suggested one or more jurors may be grappling with whether the prosecution met this standard of proof on certain counts.
The jury concluded its first day of deliberations Thursday with a series of questions to the judge.
Prosecutors contend Manafort was paid millions of dollars for consulting work for Ukraine's former president, putting money in secret offshore accounts and hiding income from the IRS. DMP International itself was not indicted - though as a company it could have been, Ellis had told the jury previously.
Manafort attorney Kevin Downing was pleased with the question.