To organize your office, you need to divide and conquer first. The first step to organize the office is to track your paper trail. Prioritize the work. Once you have already thrown or even filed the unnecessary stuff, sift back through the papers you have kept. Get more tips at http://www.ehow.com/how_2194821_organize-your-office.html.
I've always asked a friend or coworker to help me. (one that is a very organized person though!). This helps me to stay focused, and complete the task. Otherwise, I get sidetracked reading & looking at things I uncover while cleaning! :D