I don't believe AIR 2 will natively support TWAIN at this time, but you might want to review the new NativeProcess API and Interacting with a native process quick start demo to see if that would assist you.
Alternatively, I would like to suggest creating a feature request (or voting on an exiting one) at the Adobe Labs Ideas website.
Cool, thanks for the info Chris. I've heard about this stuff and it does look promising. But what about if AIR were able to talk to a Java application, such as JTwain? I've been looking at JTwain and even downloaded the demo and it works flawlessly with our equipment. If AIR were able to talk to something like this, that would be a solution.
Do you know if AIR is capable of doing this?