[_aavaa_]

I have a similar setup (Zotero + dropbox). Zotero syncs the entries and any notes, but dropbox takes care of the pdf storage. You can swap out dropbox for your storage of choice.

I use zotfile (http://zotfile.com) to handle this.

Files are all stored in a single folder (which can be in different locations depending on computer) which I point zotfile to. Inside that each paper is put into a folder based on author names. And each pdf is then renamed based on authors, year, and title.

All of the above is customizable and automated.

[kristjansson]

I can’t recommend ZotFile enough. It, along with Zotero, have basically solved cross-platform cross-device reading and reference management for me.

[jcuenod]

Another +1 for Zotfile, but Z6 looks like it bakes in some of zotfile's features.

[ryanwwest]

I'm glad it includes some, but perhaps not the feature of storing pdfs in a different place so they can be easily synced via Dropbox? While I'd like to have as few extensions as possible, maybe I'll neat to keep Zotfile around regardless.