[type0]

There is Zotero for Firefox (open source, a bit clunky) for annotations and Mendeley not open source but has good tagging, search and note-making utilities.

My advice is not to use any proprietary software (not future proof) and not to use Zotero (to complex and becomes tiresome). The easy way: open your pdf in Firefox, bookmark it, tag it the way you like, put notes in the title bar. For more extensive note taking: TiddlyWiki files, bookmark and tag. Then use search utility of your choice for that. One simple tool for note-taking that I like is nvPy, put your notes tags, and file locations as links (local or remote), link your notes together.

If you need remote storage, rsync it and tag it, also rsync the bookmark library.

What's your daily driver Linux, Windows or Mac?

[krewast]

Hey, thanks for the tips! I'm currently using a Mac.