It seems that there's a bug with MyISAM tables in any version of MySQL since 4.1 running fulltext indexes.
If you do a FLUSH TABLES (without replication running) and then copy these tables to another DB server (which is essentially a mysqlhotcopy) replication will eventually break with:
Error 'Incorrect key file for table './blogindex/FOO.MYI'; try to
repair it' on query. Default database: 'mydb'. Query: 'DELETE
FROM FOO WHERE FOO.DATE_FOUND < '2006-12-12 22:35:33'',
Error_code: 126
This works just fine for regular MyISAM tables and only breaks for tables which have fulltext indexes. It seems that maybe the index isn't correctly being written to disk?