irqpoll rulez !-)
With this kernel option I get full performance from glxgears, but the interrupts show up under the driver for the only working PCI slot, not the primary PCIe! Looking at the board layout I see that this one is exactly 4 slots further -- maybe Gigabyte did the classic INT rotation over all slots?
I cannot pursue this further right now, this is just a quick note, in case someone has a naked board and a multimeter handy :)
Torsten