With Ernest de Koven Leffingwell he organized the Anglo-American polar expedition which wintered off Flaxman Island, Alaska, in 1906-07. They lost their ship, but in a sledge journey over the ice they located the continental shelf of the Arctic Ocean, 65 miles (105 km) offshore, where in 2 miles (3 km) the sea increased from 50 meters (164 ft) to more than 690 meters (2264 ft) in depth.
Organizing an expedition to map out the northeast coast of Greenland, to recover the bodies of Mylius-Erichsen and Lieutenant Höeg-Hagen and their records, Mikkelsen wintered 1909-10 at Shannon Island, East Greenland. His wooden ship, the Alabama, was trapped in the ice of Shannon and, while he was exploring, the rest of the party returned home on a whaler. Remaining with his engineer, Iversen, Mikkelsen succeeded by a series of hazardous sledge journeys in recovering the lost records and in disproving the existence of Peary Channel.
The two explorers returned to Shannon island to find the crew gone, but, they had salvaged timbers and planking and erected a small cottage. Mikkelsen and Iversen then spent two winters at the cottage before they were rescued, in the direst of extremities, by a Norwegian whaler in summer 1912. The so-called Alabama cottage has survived, intact, and was photographed during a visit by Danish Navy inspection ship Ejnar Mikkelsen in September 2010.
In 1924, he led an expedition to settle what later came to be Scoresbysund.
- Conquering the Arctic Ice (London, 1909)
- Lost in the Arctic (1913) Some of his Greenland expeditions are recounted here.
- Mylius-Erichsen's Report on the Non-Existence of Peary's Channel (1913)
- Tre Aar par Grönlands Ostkyst (1914)
- Norden For Lov og Ret, a story (1920)
- translated as Frozen Justice (1922)
- John Dale, a novel (1921)
- Two Against the Ice, with a foreword by Lawrence Millman (Steerforth Press, 2003)
- Danish Armed Forces, FORSVARET, Greenland Command, press release, 11 September 2010, Ejnar Mikkelsen back at Shannon Island after 98 years Google translate, 26 Sept 2010.
- "Update: Denmark's Arctic Assets and Canada's Response — Northern Deployment 2009: Danish Navy & CCG in the High Arctic". Canadian American Strategic Review. 2009-09. Archived from the original on 2009-09-12.
- Meddelelser om Grønland (50 volumes, Copenhagen, 1876–1912)
- Rines, George Edwin, ed. (1920). "Mikkelsen, Ejnar". Encyclopedia Americana.
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