Were they moved inside a hidden folder? If so, just move them back out of that folder.
If the files are still in their original locations, but are hidden, open the Terminal app (found in the Utilities folder in the Applications folder).
Enter the following command, leaving a space at the end, and don't press return yet:
cd
Now, drag the icon for the flash drive onto the Terminal window, to insert its path into the command.
Then, switch back to the Terminal and press return. The command prompt should change to contain the name of the flash drive. If that doesn't happen, you did something wrong, so do not proceed any further.
Next, enter the following command, either by retyping it exactly as shown, or by copying from here and pasting into the Terminal:
chflags -R nohidden *
That should show all hidden files on the entire flash drive.
Note that you should not do that to your internal hard drive. There are many hidden things that should remain hidden.