Unfortunately, at present time, we don't have direct ability to import eml into Notes nsf directly through the IBM Notes application.
An enhancement for this ability has been logged with us,
http://www-01.ibm.com/support/docview.wss?uid=swg21660000
We could suggest opening a pmr with us and having an engineer add your additional interest onto the existing associated enhancement request spr to add weight on it's interest of being supplied as a feature in a new/upgraded release.
At this time, Google searches on interest of importing eml into Notes nsf does provide some thoughts that might be of interest to you.