Hi
Your case is the other way round -
The wiki is talking about when there is content on the file system, it is not in the DB, but is stilll in the index, then an index rebuild will resolve the issue of the data for a node being in the index, found by a search, and then not in the DB.
If you have nodes in the DB and the content is missing you have a problem.
The wiki describes hot back up (copy the latest index backup, copy the DB, copy the content store). So the content may contain new stuff but have no reference in the DB. If you can replicate the content store you have hot content backup and should not loose content. Your repo recovery is at the point of your DB backup. The index will be a bit behind but cna be configured to catch up fast compared with a full reindex. The content back up will be a bit ahead. Old content is periodically deleted. It is not immediately deleted so your back up will go back to the versions of the docs when the DB was backed up. When old content is cleared up is configurable and should be sensible compared with the DB back schedule, or you should copy the state of the content store - so you have an immutable copy.
If you have nodes in the DB and not in the content store you have lost content somehow. Removing the nodes from the DB will resolve this - but you have still lost something. At least you have the meta data to determine what has been lost.
I hope this clarifies what is going on.
So the question is, how did you loose your content?
May be your back up cycle is too long compared with how long content is held in the content store. You can copy the state of the content store (not the indexes) as a back up whenever you like - it will not have older content removed periodically.
Andy