example.com/whitepapers/) in Wordpress which by itself works fine. Lately I added an actual folder that stores my PDF whitepapers. An average URL is going to be www.example.com/whitepapers/pdf.pdf.

Because of that folder, the permalink no more works. It is possible to way I'm able to circumvent this? I wish to keep your structure because of Search engine optimization reasons. Thanks

Found things i was searching for in http://wordpress.stackexchange.com/questions/6373/wp-page-and-subdirectory-with-same-name

No real solution and so i will need to relabel my directory and redirect the required files.