Due to a problem in P-Tile Intel® FPGA IP for PCI Express* with the Intel® Quartus® Prime Pro Edition Software version 22.1, link-up failure will occur after a Root Complex power cycle when using the common clock scheme as Endpoint or Upstream Port mode.
To work around this problem when using the Intel® Quartus® Prime Pro Edition Software version 22.1, implement a separate clock scheme.
This problem is fixed starting with the Intel® Quartus® Prime Pro Edition Software version 22.3.