The final decade of Murray’s career is highlighted by an increase in vibrantly painted, multi-paneled paintings that offer new looks on signature themes of interiors, tables, coffee cups, and shoes.

Murray completes her second NYC Transit mural project Court Square/ 23rd Street Station called Stream (’01). Murray becomes the fifth woman in the history of the Department of Painting and Sculpture at the Museum of Modern Art to receive a career retrospective at the Museum (’05), a distinction previously given only to Louise Bourgeois, Lee Krasner, Helen Frankenthaler, and Jackie Winsor. The exhibition includes over seventy-five paintings and works on paper, from the earliest phase of Murray’s career through her most recent work. The exhibition travels to Institut Valencia d'Art Modern, Valencia, Spain (’06). Group exhibitions include: Splat Boom Pow! The Influence of Comics in Contemporary Art, Contemporary Arts Museum, Houston (’03) which travels to the Institute of Contemporary Art, Boston, the Wexner Center for the Arts, Columbus, Henie Onstad Kunstsenter, Hovikodde, Norway (’04); Disparities and Deformations: Our Grotesque, SITE Santa Fe (’04); Think with the Senses, Feel with the Mind: Art in the Present Tense, 52nd Biennale di Venezia (’07). Murray dies of complication of lung cancer (’07).