Once the links have been removed from the underlying database, then the next RDF generated from it will no longer have those links. RDF dumps are generated once a week when things are running smoothly. IIRC, date on the RDF dump is the date on which the dump file formatting was completed, rather than the date the snapshot of the data was taken from the live database. The latter may be 2-4 days before the RDF date.
I would therefore imagine the geocities links will be absent from the next RDF dump generated.