Maybe I'm way off-base in my understanding of this but here are my 2 cents to chew on. This seems to be more of an issue in how Hibernate constructs, configures, references, and implements the generators. The @GeneratedValue name is a reference to a global generator for a persistence unit so referring to it from multiple annotations shouldn't generate duplicate errors. The @SequenceGenerator defines the parameters that should be "passed" to the referenced identifier generator and so also shouldn't generate duplicate errors. The objects needed/created/referenced by the persistence provider to support this should be irrelevant to generating errors/warnings about the configuration. Not looking for response, more or less venting about the "duplicates" being logged as warnings.