Your post has me a bit confused. I think what you are saying is that you want to arrange your page list other than alphabetically. What you need to do is edit the "template tag" that is pulling your list of pages in your sidebar.
You should read up on Template Tags if you haven't already since they control how everything works. Well most everything. The template tag that is probably calling your page list is called wp_list_pages.
First things first: search through your sidebar.php and see if you find wp_list_pages. If so, you can edit the parameter of that to something like this:
<?php wp_list_pages('sort_column=menu_order'); ?>
Hope this helps/works