How do I rebuild a common library used by both iPhoto and Aperture?

I'm using a common library for both iPhoto and Aperture—latest versions of each and Mavericks. I'm finding photos that are in the library that seem to have fallen out of their events or projects. When I open those events or projects, the folders are empty, however the photos are still in the database. How do I rebuild this library so as to recover my original organization?

it will not matter, if you rebuild in iPhoto or Aperture.
You rebuild the library by launching either Aperture or iPhoto while holding down the key combination⌥⌘  (option-command)  and double-clicking  the Aperture or iPhoto icon. Keep holding down the keys, until you are seeing the Library First Aid panel.  Select to Rebuild the database.
Back up your library before rebuilding.
When I open those events or projects, the folders are empty, however the photos are still in the database. How do I rebuild this library so as to recover my original organization?
Where are you seeing the photos, that are missing from the projects, but are still in the database?
Rebuilding will collect photos, that have lost the connection to the edited versions, and show them in a "Recovered Project".  It will not restore them to the original  projects, if it is not clear, what where the originals belong to.
Have you checked, if you have filters set, that are hiding the photos? Check the search fields in the browser and the Info panel, if they are cleared and set to "Show All".

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