When attempting to organize articles that have been moved from a different world, the articles are NOT listed in the navigation option list.
Moving articles between worlds does not update your world's index right now. In order to update your world Index you can go to the worlds configuration (of the world you transferred the articles to and refresh your index. You can find this on the right hand side of the world configuration page under "Tools & Advanced Actions" Please let me know if you have fixed this.
Updating my world's index has fixed the issue. Thanks!