Sribbly is a nice note taking application that sits in your system tray and lets you quickly jot down notes, to-do lists and any other text-based information. You can also email yourself notes later with a click.
When you cut, copy & paste text from a web page into an email message or a Word document, the associated formatting styles also get copied along with the text. A keyboard shortcut can clear the formatting.
While Instapaper and Clipmarks let you save web clippings from the browser, ShifD is available for mobile phones and also provides a desktop client so you can take notes from virtually any Windows or Mac software.