Remove all unrequited repo from following location
DVTSourceControlWorkspaceBlueprintWorkingCopyRepositoryLocationsKey DVTSourceControlWorkspaceBlueprintWorkingCopyStatesKey DVTSourceControlWorkspaceBlueprintWorkingCopyPathsKey DVTSourceControlWorkspaceBlueprintRemoteRepositoriesKey
Checkout all steps [Steps][1]

[1]: https://stackoverflow.com/questions/27516220/xcode-source-control-showing-multiple-working-copies/35098590#35098590

Remove all unrequited repo from following location
DVTSourceControlWorkspaceBlueprintWorkingCopyRepositoryLocationsKey DVTSourceControlWorkspaceBlueprintWorkingCopyStatesKey DVTSourceControlWorkspaceBlueprintWorkingCopyPathsKey DVTSourceControlWorkspaceBlueprintRemoteRepositoriesKey
You can remove all unrequited working copy using following linked steps. [Multiple Working Copy][1]


[1]: https://stackoverflow.com/questions/27516220/xcode-source-control-showing-multiple-working-copies/35098590#35098590