I've tried using the portable versions of both tools. 1.3.3.658b will work as expected for the first few days, then something happens and it will only show files from the C: drive. 1.2.1.371 works perfectly. I've tried uninstalling and reinstalling, removing the everything.db file and I still get the same behavior.
Running on Win7 64bit, 8G, 1G video, plenty of hard drive space.
I can live with 1.2.1 easily enough but I do like the newer features and changes in 1.3.3.
Anyone have an idea?