If you are referring to the Incomplete-folders...the incomplete files that are
highlighted in red are being held in the actual Incomplete-folder. That is, it
seems as if the Old Incomplete-folder and the Actual Incomplete-folder are
indeed the same.

What caused my problem was when I went into "Preferences" and "Options" and
clicked the "Restore Default" settings. I was able to restore my Shared-folder items. However, the items in the Incomplete-folder are downloading (when I resume the download) at zero instead of their current sizes.