At first my BIOS said the card may not work right because there is no more option ROM space.
I disabled the Option ROM for both LSI 1068 and 2008 chipsets, Network Boot ROM and most other PCI slots, Serial Port, etc... and the message went away but the card still does not work properly.
But it still cannot initialize the card properly(does not work):
[ 33.943272] NVRM: This PCI I/O region assigned to your NVIDIA device is invalid:........