If you're taking about the system warning LED on the physical controller, that typically indicates a hardware component failure/degradation. It would not be related to this "sam.misconfig" warning in HealthCheck.
I would examine the environment, storage and EMS/messages files for evidence of a hardware problem. If it's not obvious, open up a case with NetApp Tech Support.
My Autosupport builds the recommendation once when the ASUP arrives, there is a chance that partner's asup is not yet processed causing this warning. This doesnt cause the controller and neither the internal PSDB recommendation thats seen in internal tool.