Can Hibernate tool generate JPA POJO?

You just need to choose EJB3 + Java5 as configuration options when generating.
Learn more: http://docs.jboss.org/tools/4.0.0.Final/en/hibernatetools/html_single/index.html#jpa_annotations

I believe you can generate Hibernate annotation code by using the Hibernate Perspective -> Add Configuration… and follow the steps of this tutorial .

I suspect the JPA annotated entity can be generated if you select JPA(jdk 1.5+) or Annotation (jdk 1.5+) in the following configuration .Please try it.