Tom,
When you opened 1.1 for the first time it should have converted all your projects to workspaces. There were a few issues that I experienced with some of my math files (and since I shared those with you, I'm sure you may have them too). The workspaces are stored in a different place by default (now under a Documents/MoTeC folder instead of Documents/Motec Projects).
I'll be happy to help you get it all sorted. Perhaps we can use TeamViewer so I could work on your computer remotely.
Give me a call or email...
David Ferguson
Veracity Racing Data
805.238.1699
ferg@veracitydata.com