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I followed this guide to install bumblebee on Fedora 16, and I did everything in the tutorial.
Bumblebee seems to work as optirun glxgears returns non-vsynced frame rates, but Gnome 3 is in fallback mode. glxgears or any other 3D application won't start, so I doubt it's Gnome specific.

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The problem was the X server was trying to load the NVIDIA GLX module, and not the one for the Intel GPU.

All you have to do is add the following section to your xorg.conf:

Section "Module"
    Load "/usr/lib64/xorg/modules/extensions/libglx.so"
EndSection

After a reboot Gnome won't start in fallback mode, and you can use both GPUs.

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