Thomas, who died on Saturday at the age of 92, was the first female member of the White House press corps. She covered the White House from 1960 until 2010, when she resigned after making anti-Semitic remarks.
"We offer sincere condolences to the family and loved ones of Helen Thomas, whose pioneering work helped shape the profession of journalism," CAIR said in a statement Sunday.
"She will be fondly remembered by the American Muslim community and by all those who value a free press and transparent governance," they said.
Thomas was a fixture at the White House for decades, covering every president from Dwight D. Eisenhower to Barack Obama. In May 2010 a viral video cost Thomas her position when she said Israeli Jews should "get the hell out of Palestine."
At a White House celebration for American Jewish Heritage Month, Thomas was asked by RabbiLive.com if she had any “comments on Israel.”
“Tell them to get the hell out of Palestine," Thomas said. "Remember, these people are occupied, and it’s their land.”
Thomas then suggested that Jewish people "go home" to “Poland, Germany,” “and America, and everywhere else.”