Recently, I noticed that both my 2K12 SCOM management servers were in a critical state; Security and the underlying "Windows Local Application Health Rollup" were red, although everything else underneath looked fine.
I tried overriding/disabling the local app rollup for the servers, and that fixed one server, but not the other...re-enabling brings the alert condition right back. Restarting the health service with a cache clearing also resolves the issue only temporarily. I have seen recommendations for putting the server in maintenance mode for 5 minutes in other cases, but I know better than to put a management server into maintenance mode.
Anyone have something else for me to try?