Comment Microsoft Office OneNote (Score 2, Informative) 366
Imagine a bookcase, each shelf housing a row of 3-ring binders, the binders of varying width (1", 2", 3", etc.), each devoted to a different collection of related items, the spines labeled to indicate the subject of the collection (Notes on Books I've Read; Daily Diary/Journal; Favorite Recipes; Vitamin D; etc.). Call the binders 'Notebooks'. Divide each notebook into sections, with labeled tab separators, as many separators as you need to organize the collection logically and usefully. Each section contains contains pages, the pages each with a title to indicate its contents.
Oversimplified, that physical organization, transmogrified into a computer program, gets you Microsoft OneNote.
Many features to ease the process of building and adding material to the notebooks, and finding the information you've stored in them. When the program is closed, if a thought occurs or an item of information in any electronic form comes up, clicking an icon in the notification tray pops up a small blank note page for writing your thought or cut/pasting whatever information into the note page. It's automatically stored in an "Unfiled Notes" notebook for later transfer to or as a page in the appropriate section of the appropriate notebook.
Simple to start getting organized, its depth of features you can pick up as you need more functionality. See http://office.microsoft.com/en-us/onenote/. (I'm not associated with Microsoft, just a professor who uses the program).