First, they are all for the server side configuration.
Second, jaxws:endpoint is coming from JAXWS API, and it is used to
configure the org.apache.cxf.jaxws.EndpointImpl which extends
javax.xml.ws.Endpoint.
jaxws:server is for configuring the JaxWsServerFactoryBean, which is
coming from the Xfire API.
For the user who has the Xfire using experience, I think they will
prefer to use jaxws:server tag.
For the JAXWS API fans, jaxws:endpoint will be they first choice.
There are not much difference between the jaxws:endpoint and
jaxws:server, since the EndpointImpl is a wrapper class for the
JaxWsServerFactoryBean.