The problem is that you have more (multiple) folders underneath the one that is password protected. If you move all the files out and delete that folder it will not ask you multiple times.
Please update all the links as they are still pointing to the old folder.
Example: password protected folder
|--- sub folder (this is where you are linking to)
If you move all links, pictures, html files etc. and then remove the sub folder. The password protect program will no longer ask for the password multiple times. Or you can remove the password protect option.
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