Regarding your FAQ:
when you say:
javax.jmsAPI is included in the application's
Which application are you referring to? Is the JAVA application's CLASSPATH or Bamboo/Atlassian's CLASSPATH ?
As far as I know the JAVA CLASSPATH in Ubuntu is something like /usr/lib/jvm/java-8-openjdk-amd64/jre/lib where the JAR files are. However in the Bamboo directory we can also find JAVA JAR files in ./atlassian-bamboo-8.0.0/atlassian-bamboo/WEB-INF/lib/.
I'm asking this because I'm not sure which is the CLASSPATH we should look for the