Client-side JavaScript Validator only checks client-side JavaScript, i.e. material on web pages. What you want to do is put jQuery in the folder that you designate as the library folder, and not in the source folder (libraries are not checked using the JavaScript Validator builder [you will see this on the Properties page of the project dialog box]). If you need, you can exclude the subfolder of the source folder in your JavaScript Include Path project to cut out the spot for the library folder.
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