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yes in older versions of FileMaker deleting fields causes the fields in an import step to slide up and match with the wrong fields.
The simple solution is => DONT DELETE FIELDS! (just prefix them with zzz and make them global)
Alternatively => upgrade to fm14 (fm14 has improved the command and this Gotcha no longer occurs)
(Of course the flip side of this coin is that new fields in the source table are not automatically added to imports any more - which may or may not be a good thing)