Additional icons behind item names, e.g., in main windows, indicate that the item has been indexed instead of imported, is locked, has a comment or annotation attached, is encrypted, e.g., PDFs or encrypted databases, or has a triggered script attached. Groups also serving as tags show a tag icon. Depending on your preferences, replicants, duplicates, or replicated duplicates are indicated with a little grey icon instead of appearing in color.

- Item has encryption applied, e.g., encrypted PDFs, and encrypted database, or an encryption key has been specified for a sync location in Settings > Sync.
- Database is an revision-proof archive.
- Item is unread.
- Item has been flagged.
- Item is indexed, not imported.
- Item is locked.
- Item has a comment.
- Item has an associated annotation file.
- Item has a reminder set.
- Item has outgoing item links.
- Item has incoming item links.
- Item has a script attached.
- Item has an attachment (email messages only).
- Item is pending—synced but its content is not (yet) downloaded.

- Item is a duplicate.
- Item has one or more replicant(s).
- Item is a duplicate, but also has one or more replicant(s).