The present invention provides a method for customizing application services of a data card. The system comprises a data card and an over-the-air server. The method comprises: the data card sending an application service customization request to the over-the-air server when an application service is required to be customized; and the over-the-air server receiving the application service customization request, and then returning a configuration command corresponding to configuration information to the data card if it is determined that an operation of the data card to request customization of the application service is valid according to the stored and managed configuration information of all application services supported by the data card.