Foreign keys - link using surrogate or natural key?

Question

Is there a best practice for whether a foreign key between tables should link to a natural key or a surrogate key? The only discussion I've really found (unless my google-fu is lacking) is Jack Douglas' answer in this question, and his reasoning seems sound to me. I'm aware of the discussion beyond that that rules change, but this would be something that would need to be considered in any situation.

The main reason for asking is that I have a legacy application that makes uses of FKs with natural keys, but there is a strong push from devlopers to move to an OR/M (NHibernate in our case), and a fork has already produced some breaking changes, so I'm looking to either push them back on track using the natural key, or move the legacy app to use surrogate keys for the FK. My gut says to restore the original FK, but I'm honestly not sure if this is really the right path to follow.

The majority of our tables already have both a surrogate and natural key already defined (though unique constraint and PK) so having to add extra columns is a non-issue for us in this insance. We're using SQL Server 2008, but I'd hope this is generic enough for any DB.