I was hoping this would have been fixed by now, but this latest version does not fix it. I had been using Flexiglass for a couple of months, before Lion was released. Under Snow Leopard, it worked great. I really like the ability to drag windows to the sides to automatically take half the space, and I use several of the other features as well. But I have been unable to use it since Lion came out…
What I found was, when Flexiglass is active, many of my mouse clicks won't take. That is, I'll click a button, or even a web link, and I'll see the visual behavior on the screen showing the mouse-down event (e.g., the button will appear depressed), but that's it. I have to click a second time for the application to recognize the full mouse click. This happens sporadically, but I would estimate it happens about 30% of the time or more…so very frequently.
I use a Trackpad, both embedded in my MacBook (Pro and Air), and an external track pad when docked to my large screen displays. The behavior is consistent with all of them, on both computers. If I kill Flexiglass, the normal behavior resumes. I'm certain now it is Flexiglass.
Another clue, my Trackpad preferences set "Tap to click"… so I do not need to physically click the trackpad. I just tap lightly to get a button click. I'm guessing the Flexiglass testers do not have this set, because my guess is the problem is a conflict with Flexiglass and Tap-to-click. (Could be wrong.) FYI, I also have "Secondary Click" (with two fingers) checked, as well as "Look up" and "Three finger drag".
I hope you can fix this soon. I miss the app.