I've found that, in many subjects, the writing involved in taking notes actually helps me learn, which is something that either didn't happen before, or maybe that I just didn't need any help learning.
With this type of research, though, some sort of note-taking is pretty much necessary. My old standby of leaving browser tabs open has proven extremely unwieldy, and I find that I need some sort of a document to keep links in. I've taken to using http://www.bibme.org as a combination note-taker and working bibliography tracker. It works reasonably well for web-sourced articles. When I find a link I know I'm going to want later, I feed it into bibme, and it tries to pull out relevant info in order to make an MLA works cited page out of it, and then prompts for any of the info it can't determine for you. That way, when it comes time to actually create a works cited from it, I can pull out the sources I want, and then tweak them if the format doesn't look right. But in any case, it gets the article source, title, author, date, etc, as well as keeping track of the date I read the article. It then alphabetizes them properly in a works cited page, as well as gives you a place to add any kind of annotations. While I'm noting the site, I generally grab a section of the page that I know I'm going to want to come back to and paste it in inside quote marks. This gives me decent MLA-formatted works cited, in addition to some sort of indicator of just why I wanted to save it.
While I wouldn't blindly turn in this works cited page, it does give me a really handy starting point of a works cited as well as serving the purpose of notes. I've now gone through and moved all my "tabs I left open so I could find them later" into there, and am fairly pleased. It will then export it as a text file, which I pull into Google Docs for easy access/editing from anywhere I happen to want to work on things.
I highly recommend that anyone who needs to take notes on sources as well as keep track of them for a works cited page check out bibme, as it's serving both these services rather well for me. Now I can go through the generated works cited, look at the bits I quoted in order to figure out why I wanted to reference the article. I can then go through and do proper annotations whenever I want, replacing quoted bits with relevant source info such as authority and intended readership.
For me, taking notes is more so I can easily find the info later, and this technique seems to work extremely well.