Rupert Murdoch's son James quits company
In a filing to US regulators, he said he also disagreed with some "strategic decisions" made by the company.
The exact nature of the disagreements was not detailed.
But Mr Murdoch has previously criticised News Corp outlets, which include the Wall Street Journal, for climate change coverage.
Rupert Murdoch, News Corp's executive chairman, and his other son Lachlan, co-chairman, wished James well in a joint statement.
"We're grateful to James for his many years of service to the company," the statement said. "We wish him the very best in his future endeavours."
Representatives of Mr Murdoch and his wife Kathryn have acknowledged the couple's "frustration" with coverage of the subject by some of most influential Murdoch-owned news brands, including Fox News.
They have also spoken of particular disappointment about climate change denial in Murdoch-owned Australian outlets.
News Corp also owns The Times, The Sun and The Sunday Times in the UK, as well as a stable of Australian newspapers, including The Australian, The Daily Telegraph and The Herald Sun.
What do we know about past disagreements?
Earlier this year, amid devastating wildfires in Australia, Mr Murdoch and his wife Kathryn expressed their frustration with climate change coverage by News Corp and Fox.
Their spokesperson told The Daily Beast they were "particularly disappointed with the ongoing denial among the news outlets in Australia given obvious evidence to the contrary."
Rupert Murdoch has described himself as a climate change "sceptic" and denies employing climate deniers.
But critics of News Corp pointed to its comment articles and reporting of the alleged role of arson in the wildfires as minimising the impact of a changing climate.
James Murdoch's resignation letter:
