I bought the scenery several months ago after finally upgrading my old computer. Other than some parking issues, I have had no problems with the scenery. Last night I loaded up FS9 and was going to plan a flight from ORD, however none of the gates and runways were available. When I selected ORD, the only available option was Active Runway. And also in my scenery library I did notice two entries for ORD, and both have the same startup options. The only changes I have made recently in FS9 was to install some new AI traffic and I also installed a freeware scenery for KPIT.
I have not added any AFCAD files or modified the AFCAD in any way, it was working ok last week when I last flew into ORD and then last night, I got the symptoms that I described above. It appears as if the scenery is still showing registered and active as well (from the Addon Manager).
I am not in front of my home PC right now, but will be later tonight to troubleshoot further. But I am hoping that somebody else has seen this and knows how to resolve it.