Our core system (Jack Henry) will always choose the first letter of the last name as its filing mechanism. When a name is hyphenated, (Smith-Jones) it will choose S, rather than J. I train platform people to be alert to 1) how does the customer introduce herself, and 2) does the DL correspond to the last name? (Here in NJ driver's licenses also begin with first letter of surname.
Although it's a difficult thing to bring into conversation, I encourage you to be sure that customer intends to remain "hyphnated". Two years from now, when she is tired of correcting everyone who calls her Jones, instead of Smith-Jones, our computer system will still be listing her as Smith-Jones, and then it gets difficult to locate the customer's CIF quickly.
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We are what we repeatedly do. Excellence, then, is not an act, but a habit. - Aristotle