Moore filed a divorce complaint June 17, 2013, in Michigan's Antrim County, where the couple has a lakefront home.
A consent judgment of divorce was entered and the case was closed Tuesday.
Moore spokesman Christian Muirhead says his client and Glynn "have mutually and amicably reached a divorce settlement." The Associated Press left a message Wednesday seeking comment from Glynn's lawyer.
Moore's filing from last year said his relationship with Glynn had broken down and there remained "no reasonable likelihood that the marriage" could be preserved.
Moore and Glynn married in Flint in 1991. Glynn was the producer or executive producer of many of Moore's documentary films, including "Fahrenheit 9/11," ''Sicko" and "Capitalism: A Love Story."