I organize a lot of information for various things, like writing continuing education programs. I almost exclusively use Word because of its OUTLINE feature. Many people don't even realize what they can do with it. It's definitely worth learning about. I like it over other outliners, in part, because 1) I can see the complete document--the outline is not divided up into separate notes they way most outliners work; 2) It has all of Word's features, so you can quickly convert it into a finished document if that is the goal; 3) Styles! If you don't know about that, definitely learn, and outlines have another benefit, such as fairly good conversion to HTML (if you strip out and replace the CSS).
So, for example, one file has all the research for a paper. Another file is the paper, which is to become the final vesion. The research file has topics that I dump research and citations into. But my personal projects and research get the Word Outline treatment as well, so I practically live out of that program. Sadly, transferring material from Word to Evernote and vice vera, cause the loss of headline structure information that is crucial to outlineing, so I suggest sticking with Word for this system.
If there's anything better, it's probably specialized enough that it would have to be a good fit, to make it worth giving up the very general flexibility of Word.