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Yes, this is the behavior of Advanced Alerts, they run as the trigger view workbook's owner so that is the USERNAME() that gets returned when generating the alert.
The way to send an advanced alert with different content to different users is to use content references and URL parameters. So the first row in the trigger view would have a content reference like VIZ_PDF(workbook/viewname?UserID=X145), the second row VIZ_PDF(workbook/viewname?UserID=X234), etc.
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