As a general caution, the FamilySearch collection from which the later entry you refer to (marriage between Nathaniel Claughton and Sarah Smith) comes includes this in the description of the collection:
It is not necessarily intended to index any specific set of records. This index is not complete for any particular place or region. This collection may include information previously published in the International Genealogical Index or Vital Records Index collections.
It's therefore necessary to investigate exactly what the underlying source is for any entry you find in this database (via the source film number).
Searching the FHL catalog for the source film number in question leads to: https://familysearch.org/search/catalog/395276
So the extra data does not come from the Bishops Transcripts at all, but from the Marriage Bond. These are available online for a fee at origins.net -- you can buy 72 hours access for quite a reasonable sum.
I suspect the two Nathaniel's are the same person, who learned to write (ator at least himsign nis name) in the intervening period, but you could consult the Marriage Bonds to be certain.
The same process for the earlier entry reveals that that entry comes from the Bishops Transcripts for Guisely.