I had a similar problem once when using the One Button Checkup. It was reporting that auto protect was disabled, although it was certainly enabled.
I contacted Norton (Symantec) and they told me that it occasionally happened and that to click on the "ignore" option in one-button checkup when the errors are reported. So if you're happy there is no problem, do the same.
If you're at all concerned, why don't you email Symantec. They were pretty quick in replying with the answer for me.