Spring Boot - Hibernate - Table does not exists

Question

I have a 3rd party jar that holds all the entities and mapping. I am currently using this jar successfully in a classic Spring-MVC application, but now I am trying to use it in a Spring-Boot application. (1.5.7.RELEASE)

I have this for my Applicaion.java:

@SpringBootApplication
@EntityScan(basePackages = "com.third.party.entity.package")
public class Application extends SpringBootServletInitializer {

    public static void main(String[] args) {
      SpringApplication.run(Application.class, args);
    }
}

As it is a third party, I have to have the session scan as well so I have this in my @Configuration class:

@Bean
public LocalSessionFactoryBean sessionFactory(EntityManagerFactory emf) throws ClassNotFoundException {
    LocalSessionFactoryBean fact = new LocalSessionFactoryBean();
    fact.setAnnotatedPackages("com.third.party.entity.package");
    fact.setPackagesToScan("com.third.party.entity.package");
    fact.setDataSource(dataSource);
    return fact;
}

and this in my application.properties:

spring.datasource.url=jdbc:mysql://dbserver:3306/mydb?useSSL=false
spring.datasource.username=user
spring.datasource.password=password
spring.datasource.tomcat.max-wait=20000
spring.datasource.tomcat.max-active=50
spring.datasource.tomcat.max-idle=20
spring.datasource.tomcat.min-idle=15
spring.jpa.properties.hibernate.dialect =org.hibernate.dialect.MySQL5Dialect
spring.jpa.properties.hibernate.id.new_generator_mappings = false
spring.jpa.properties.hibernate.format_sql = true
spring.jpa.properties.hibernate.current_session_context_class=org.springframework.orm.hibernate5.SpringSessionContext

I am getting this error:

Caused by: com.mysql.jdbc.exceptions.jdbc4.MySQLSyntaxErrorException: Table 'mydb.user' doesn't exist

Now the table name is "User" so that sort of makes sense. However, I am using this jar for another application so all of the other 100 answers on this subject do not apply.

It MUST be a configuration issue? Right?

UPDATE I tried @sam answer below to no avail, but I was able to look at the source code of this 3rd party jar file, and it looks like this:

@Entity
@Table(name = "User")
public class User {
     etc...
}

So the table name in the annotation is correct. How do I get Spring to use that? Im looking a default naming strategies and stuff... Any Suggestions?