Some of the fileystems I have on my database server listed with the comment: "access denied".
That by itself is true because only the owner of the filesystem has access.
How can I disable the filesystem check without disabling the complete OS monitoring?
There is no configuration to disable the filesystem check only.
You have to disable the OS monitoring if you do not want to get filesystem data, but you will also get no data of the complete OS if you disable OS monitoring.