One note: If these items were imported from a local folder, or with the Import Wizard (Files | Import...), then one option is to re-import them with "Create Logically linked items for duplicate urls" and "Store files contents in Ultra Recall" checked. This will re-import the same documents, and will ensure they are stored instead of linked (unchecking the "Store file contents in Ultra Recall" checkbox also works to "unstore" re-imported items).
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