How does EndNote select filters for direct export?

For Web of Science, Scopus and EBSCOhost EndNote automatically selects the RefMan RIS filter. For OvidSP EndNote selects the filter with the correct Vendor Identification and Database Identification. If more than one filter meets the criteria the result is unpredictable. Therefore it is essential that EndNote can only access one version of a filter (see previous item).

Alternatively to get control which filter is used with OvidSP you can save the exported references to disk (choose Reprint / Medlars format upon export in OvidSP) and in EndNote use File -> Import.