This is normal behavior, due to the fact that the TV does not recognize all media formats. Normally you will see all your folders, but once you open these folders the content can be different than on your PC due to the restrictions that were mentioned before of the supported media formats. (some examples of supported media formats are .jpg,.mp3,etc. for a full overview we refer you to the user manual)
Depending on the storage device you use on the PC, you can find your folder hierarchy in the Folders or Albums category in the TV PC network browser.
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