When taking snapshots of an index, are deleted documents handled? I.E. When I later restore a snapshot it will not re-index documents that I deleted?
Welcome!
A restore operation does not reindex anything. It just copy files basically.
If the deleted document does not appear anymore in a segment, then it will not be part of the snapshot.
If it's still there because a merge did not happen, the deleted document will be saved with the snapshot and will be restored later. AFAIK.