The following is my response to Dr. Christopher Long's posting on Closing the Digital Research Circle.

Here are what I am doing:
1)Use Zotero to keep all references and PDF files on my main laptop (needs FF)
2)Change the PDF file names using the "Rename file from Parent Metadata" function
3)Convert selected PDF files into Word documents using ABBYY FineReader or ABBYY PDF Transformer. (These ABBYY products are amazing in converting PDFs to Word docs.)
4)Import all the documents to NVivo, which is an excellent qualitative research tool
5)Log on to the the main laptop from anywhere by using any device that has a remote desktop feature (I know that iPad also has several apps that allow you to do this)
6)Start annotating, categorizing, and classifying the content.

--> You can keep everything on one computer and annotate documents using NVivo. Your synthesis work becomes a lot easier this way, although it requires some conversion work.