Murdoch, son of media mogul Rupert and deputy chief operating officer of News Corp, remains chairman of News International, the News Corp unit that houses its British newspapers, and a member of the Times editorial board.
The News International unit has been damaged this year by the revelation that people working for the popular Sunday tabloid hacked into the phones of thousands to generate news.
Rebekah Brooks resigned as chief executive of News International the following week, and was replaced by Tom Mockridge, former head of News Corp-owned Sky Italia, on July 15.
“Following the appointment of Tom Mockridge as CEO of News International, in September James Murdoch stepped down from the boards of a number of News International subsidiary companies including News Group Newspapers (NGN) and Times Newspapers Ltd (TNL),” News International said in a statement.
Mockridge replaced Murdoch on the two boards.
The filings show Murdoch resigned on September 13 from Times Newspapers Ltd and on September 19 from NGN. September 13 was the date on which he discovered he would be recalled by a parliamentary committee to answer more questions.