I looked into archiving articles and websites earlier this month.
You want to stay away from automatic tagging. It causes you to not put a lot of effort into it initially, and you end up tagging 10+ things to everything. This makes it hard to manage later on. You then have a 50,000+ tag cloud, and it'll be either very complex/vague and "un-human".
Evernote has search, and it's free. You can make a few Notebooks, clip with a bookmarklet, or send PDF copies to it, and mark them up. Or you can just copy and paste stuff.
If you like Pocket, keep using it, but look into the IFTTT actions that you can use with it and Evernote and some of the other services:
https://ifttt.com/connect/pocket/evernote