The split in the couple's 14-year marriage comes after months of rumors they had been growing apart, and repeated denials from representation.
Murdoch, 82, married Deng, 44, a year after he left his wife of 31 years. His divorce from Anna Murdoch reportedly cost him a massive $1.7 billion settlement.
Murdoch reportedly notified Deng before beginning divorce proceedings, in which he said the "relationship between husband and wife has broken down irretrievably."
The couple have two daughters, Grace, 11, and Chloe, 9.
Deng made waves when, during a hearing on the British phone hacking scandal, she slapped away a protestor who tried to hit Murdoch with a shaving cream pie: