OneDrive Sync Client
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As Microsoft released the new OneDrive Sync Client (OneDrive Next Generation Sync Client), we've created the ability to choose as a Workspace 365 administrator which Sync Client you would like to use in the Documents app.
You have to make sure that you have changed this setting in the SharePoint admin tenant the same as in Workspace 365.
Which sync client should I use?
We recommend using the new Sync Client as it provides the newest experiences that comes with Windows 10. Also, before the entire document library would be synced (the entire root). Now, the new Sync Client allows you to sync specific folders within that same document library. However, this feature does not yet work for 'My documents', because the OneDrive Sync Client sees SharePoint differently than My Documents. If you select My Documents, for now everything will be synced.