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the past couple years, industry thinking had it that architecture should be as flat as possible.  I never held that belief, and all my clients who employed the "2 - 3 layers, 4 at most" policy all sailed through the Panda update. The issue is as much about deep internal linking as it is about topical organization and a major signal about topical relationships is in folder keyword seeding, along with breadcrumb navigation, supported by inbound links pointing to that 2nd and 3rd layer.

In my opinion you should claim both listings so you can at least control them until it gets resolved. The problem you with with deactivating either one of them is potentially losing any authority from the deactivated listing. Thats why I recommend contacting Google to merge them. But a good short term fix is to claim both listings and update them to have same/similar info, but you are still potentially splitting citation authority over 2 listings potentially.

Thanks Roger and Dave.  I appreciate the responses.