Fitton has been President of Judicial Watch since August 1998. According to Judicial Watch's mission statement, the organization seeks to promote integrity, transparency, and accountability in government and fidelity to the rule of law. The organization fulfills its mission primarily by seeking access to government records, filing Freedom of Information Act (FOIA) and other public records act lawsuits, engaging in other forms of civil litigation, and pursuing various other actions designed to generate public pressure on government agencies and public officials.

Under Fitton’s leadership, Judicial Watch was named one of Washington’s top ten most effective government watchdog organizations by The Hill. He is a nationally recognized expert on government corruption, immigration enforcement, congressional and judicial ethics, and open government.

Fitton’s book, "The Corruption Chronicles," released in 2012, hit #1 on BookScan’s nonfiction hardcover list and debuted at #6 on The New York Times Best Sellers Nonfiction Hardcover List on August 12, 2012.

Fitton is prominent for criticizing Special Counsel Robert Mueller's investigation into Russian interference in the 2016 United States presidential election; he has claimed that the investigation is a "coup" against Donald Trump and called for it to be shut down. Fitton also rejects the scientific consensus on climate change; under his tenure, Judicial Watch has filed lawsuits against climate scientists.

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