I wrote up my trusted system.
I use Levenger products for LoFi, Apple for HiFi though you can do almost everything with Windows too if you had to, except run DEVONthink.
I try to keep my workflow as agnostic as possible because I have to work on various different machines in the course of a day. So having a Mac-only or Windows-only solution is less than useless for me.
So I stick with the 3x5 index card bus since it is so portable.
I tried to capture the nuances and have lots of visual aides. I have been told it doesn't look right in IE. I don't have a machine that can run IE, so I can't troubleshoot. Sorry.