I chose “Upload to Facebook” on the Finish screen and it said “Saving to Facebook”. Where did my Cover Photo get saved?

Facebook does not currently allow third party apps to upload images directly to the Timeline Cover Photo.  Instead, your Cover Photos are saved in a Facebook Photo Album called “Cover Photo Maker Photos.”  You have to manually select a photo stored in this album and make it your Timeline Cover Photo.  This is a limitation of Facebook’s integration with apps and not of Cover Photo Maker itself.  You could also use the Alternative Method to upload your Cover Photos directly to your Timeline.