Somehow when playing around with the virtual view I got the duplicate datasets. Here's what I think I did.
See screenshot.
selected native hierarchy
expanded the view a few times (clicked on documentation, WG1 i thin)
selected default
removed the last facet of the default view (SampleName)
expanded all and selected a dataset to go into
clicked back to virtual view
started removing a lot of the additional default view facets (ExperimentType, ProtocolID and SiteCode)
-When i remove facets quickly from the default (starting at the end and working backwards) is when this seems to occur. I can recreate it.
Somehow when playing around with the virtual view I got the duplicate datasets. Here's what I think I did. See screenshot.