Most commercial data recovery software will let you scan a drive for free to see if any data is recoverable, then you buy a license key to activate the recovery feature. In the past, I've also used RecoverMyFiles ($70) with good results. You can try a file recovery tool like PhotoRec or Recuva (both free programs). If you still can't see the files as root (i.e., if the number returned by du -hs isn't about the same as that from df -h), the filesystem on your USB drive is probably corrupted somehow. You can also compare this to the output of df -h, which reports filesystem usage. From that directory, also try du -h to see the sizes of the files/directories on the drive. Then cd to the USB drive (usually a subdirectory in /media/), and run the command ls -a. On Linux, open the terminal and login as root or run sudo bash. Did the files/folders get marked as hidden, or are they simply unreadable to the user accounts you're using?
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