The ONS ML100T cards (or any ONS cards for that matter) are not supported devices in Ciscoworks. Please see the supported devices list.
When LMS discovers a devices, it will try to manage all of the device's IP addresses. Unreachable ones (suc as SVIs you can't get to from LMS) need to be manually removed from managed status. It's been a while since I've used an LMS 3.2, but I believe that's set up under detailed device view in DFM.