Hi Neuros,
We're still working on these problems and recognize the impact is high for affected users.
The Windows application issue is distinct from the Linux 3D desktop one, we're trying to chase down multiple issues. With the help of volunteers testers from this community we've managed to make a lot of progress on the Windows side of things, particularly with Office 2013. I'm still looking for feedback, particularly if you have a Windows Java application that can trigger the issue. Please private message me if you'd like to participate.
Our efforts to fix this problem were complicated by the emergence of new GPUs (640Ms, 650Ms, 660Ms, 675MXs) exhibiting similar behaviour on certain software configurations. I'm not able provide a timeline but rest assured this is something we're working hard on and would like to see resolved as soon as possible.
Simon