| 2007 | Systema Metropolis, Natural History Museum, London, UK |
| | The Natural History of the Museum, Carré d’Art, Nimes; travels to Dunkers Kulturhus, Helsingborg, Sweden, 2007; and to Seedamm Kulturzentrum, Pfäffikon, Switzerland |
| Salon Jacqueline Sommer, Musée de la Chasse et de la Nature, Paris, France |
| 2006 | The South Florida Wildlife Rescue Unit, Miami Art Museum, USA |
| 2005 | Seattle Vivarium, part of I AM SAM Olympic Sculpture Park, Seattle Art Museum - Dundee Bear Broch, Camperdown Wildlife Center in cooperation with Dundee Contemporary Arts, Dundee, Scotland |
| Dungeon of the Sleeping Bear, the Phantom Forest, the Birds of Guam and other Fables of Ecological Mischief, Château d’Oiron, Oiron, France |
| Salon de Chasse, Musée de la Chasse et de la Nature, Château de Chambord, Chambord, France |
| The Brazilian Expedition of Thomas Ender – Reconsidered, Akademie Der Bildenden Kunst, Vienna, Austria |
| Bureau of the Centre for the Study of Surrealism and its Legacy, Manchester Museum, UK |
| 2004 | Projects 82, Rescue Archaeology, A Project for The Museum of Modern Art, Museum of Modern Art, New York, USA |
| Office for the Center for the Study of Surrealism and its Legacies, Manchester Museum, UK |
| Universal Collection, Historisches Museum, Frankfurt am Main, Germany |
| 2003 | The Ichthyosaurus, the Magpie, and Other Marvels of the Natural World, Musée Gassendi and la Reserve Geologique de Haute Provence, Digne, France, June 2003 and Centro Sperimentale Art Contemporanea, Caraglio, November 2003 |
| Full House, 9th Annual Larry Aldrich Foundation Award, The Aldrich Museum of Contemporary Art, Ridgefield, CT, USA |
| 2002 | Mark Dion: Encyclomania, Villa Merkel, Esslingen to Kunstverein Hannover and Bonner Kunstverein, Bonn, Germany |
| Microcosmographia, University of Tokyo Museum, Tokyo, Japan |
| Vivarium, Tanya Bonakdar Gallery, New York, USA |
| New England Digs, Fuller Museum of Art, Brockton, MA; Bell Art Gallery, Brown University, Providence, RI; University of Massachusetts, Dartmouth, USA |
| Cabinet of Curiosity for the Weisman Art Museum, Weisman Art |
| Museum, Minneapolis, MN, USA |
| 2000 | The Museum of Poison, Bonakdar Jancou Gallery, New York, USA |
| Nature Bureaucracies, American Fine Arts Co., New York, USA |
| 1999 | Two Banks (Tate Thames Dig), Tate Gallery, London, UK |
| Adventures in Comparative Neuroanatomy, Deutsches Museum Bonn, Germany |
| The Ladies Field Club of York, National Railway Museum, York, UK (with Morgan Puett) |
| 1997 | Trophies & Souvenirs, London Projects, London, UK |
| Mark Dion: The Museum of Natural History and Other Fictions, Ikon Gallery, Birmingham; Kunstverein, Hamburg |
| 1996 | A Tale of Two Seas: An Account of Stephan Dillemuth’s and Mark Dion’s Journey Along the Shores of the North Sea and Baltic Sea and What They Found There, Galerie Christian Nagel, Cologne, Germany |
