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This isn't really an issue with Jib per se, or rather it is potentially an issue with any container that is built without the jar file (so the same applies to containers built by a buildpack for cloud foundry for instance). Jib is an easy way to re-create the problem.
E.g. in Petclinic:
$ mvn com.google.cloud.tools:jib-maven-plugin:0.9.13:dockerBuild -Dimage=petclinic
$ docker run petclinic
...
2018-12-04 14:29:22.282 INFO 1 --- [ restartedMain] o.s.b.w.embedded.tomcat.TomcatWebServer : Tomcat initialized with port(s): 8080 (http)
...