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I would check to make sure that all field validation settings on the table in your new file are either temporarily disabled on not set with the "validate always" option. Then you should get all the records imported without any being "filtered out" during import. There's a dialog that pops up after import is complete that will tell you how many records were imported and if any could not be imported. Once you've imported, you can perform finds and other operations to search for problem records so that they can be either corrected or deleted by you on a record by record basis.
Thanks I think I see where you are going with that - but how do I do a find for all records with a specific "empty" Field?
Enter find mode
Enter an = in the field that may be empty
Perform the find