quartus pro 25.3 bug?

Now I am developing  a project  with agilex7  base on the quartus pro 25.3.   the project contains R-TILE pcie hard ip and F-tile ethernet hard ip.  

During board bring-up debugging, we frequently encounter non-deterministic discrepancies between actual hardware behavior and simulation results. For instance, on a certain platform, the PCIe device fails to be enumerated by the host. Probing the Avalon-ST TX interface of the PCIe hard IP reveals continuous toggling on both the hvld and dvalid signals. However, we have verified that no traffic is being sourced to this interface, meaning these two signals should theoretically remain idle without constant toggling.

And the timing of the project is cleaning.  How should we proceed to troubleshoot this issue? Should we try upgrading the Quartus version as a potential solution?