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The rover completed its planned 90-sol mission. Aided by cleaning events that resulted in higher power from its solar panels, Spirit went on to function effectively over twenty times longer than NASA planners expected. Spirit also logged 7.73 km (4.8 mi) of driving instead of the planned 600 m (0.4 mi), allowing more extensive geological analysis of Martian rocks and planetary surface features. Initial scientific results from the first phase of the mission (the 90-sol prime mission) were published in a special issue of the journal Science.

On May 1, 2009 (5 years, 3 months, 27 Earth days after landing; 21.6 times the planned mission duration), Spirit became stuck in soft soil. This was not the first of the mission's "embedding events" and for the following eight months NASA carefully analyzed the situation, running Earth-based theoretical and practical simulations, and finally programming the rover to make extrication drives in an attempt to free itself. These efforts continued until January 26, 2010 when NASA officials announced that the rover was likely irrecoverably obstructed by its location in soft soil, though it continued to perform scientific research from its current location.

The rover continued in a stationary science platform role until communication with Spirit stopped on sol 2210 (March 22, 2010). JPL continued to attempt to regain contact until May 24, 2011, when NASA announced that efforts to communicate with the unresponsive rover had ended. A formal farewell was planned at NASA headquarters after the Memorial Day holiday and was televised on NASA TV.

The Jet Propulsion Laboratory (JPL), a division of the California Institute of Technology in Pasadena, manages the Mars Exploration Rover project for NASA's Office of Space Science, Washington.