PCI: only save/restore existent registers in the PCIe capability

PCIe 1.1 base neither requires the endpoint to implement the entire
PCIe capability structure nor specifies default values of registers
that are not implemented by the device. So we only save and restore
registers that must be implemented by different device types if the
device PCIe capability version is 1.

PCIe 1.1 Capability Structure Expansion ECN and PCIe 2.0 requires
all registers in the PCIe capability to be either implemented or
hardwired to 0. Their PCIe capability version is 2.

Signed-off-by: Yu Zhao <yu.zhao@intel.com>
Signed-off-by: Jesse Barnes <jbarnes@virtuousgeek.org>