It's strange.
Can you post your security policy file?
----------
<security name="ImageGalleryPath">~/uploads</security>
<security name="MediaGalleryPath">~/uploads</security>
<security name="FlashGalleryPath">~/uploads</security>
<security name="TemplateGalleryPath">~/templates</security>
<security name="FilesGalleryPath">~/uploads</security>
---------
Please note that the you should modify the FilesGalleryPath to specify the Document gallery path.
If you programmatically specify the Document gallery path, the following formats are correct.
//use the app-based path
Editor1.Setting["security:FilesGallaryPath"]= "~/uploads";
//use the absolute path
Editor1.Setting["security:FilesGallaryPath"]= "/uploads";
//use the physical path
Editor1.Setting["security:FilesGallaryPath"]= @"c:\inetpub\wwwroot\uploads";
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