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I just performed the kernel upgrade as part of the regular system upgrade. As usually on previous kernel upgrades, I had to install the kernel headers and recompile VirtualBox drivers. This process worked normally and VirtualBox is able to launch, but it stalls trying to run the virtual machine. When I backup to 3.5.0-37 (using GRUB menu, and recompile VirtualBox drivers) it returns to working state.

The version string from uname -a after upgrading is 3.5.0-39-generic #60-Ubuntu SMP Tue Aug 13 18:33:05 UTC 2013 x86_64 x86_64 x86_64 GNU/Linux and my system is a Lenovo laptop W520 that has been running Ubuntu/VirtualBox for a couple of years already.

Is there anyone experiencing this issue and found a solution?

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Try to install linux-headers and dkms for your kernel version:

sudo aptitude install linux-headers-3.5.0-39-generic dkms

and do not forget to do that for include the driver in the kernel:

sudo /etc/init.d/vboxdrv setup

Also be sure that vboxusers group is activated in your username group.

I hope all this could help you. I have the same version of the kernel that yours, and VirtualBox runs flawlessly...

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