Description of problem:
Start server with configured resource adapter and deployed generic-jms-ra.rar. After server started we can see registered and bound connection factory.
Then we add some changes to the server to set up jts transactions mode by CLI utility. Reload the server. Connection factory isn't registered.

Version-Release number of selected component (if applicable):
EAP 6.1.1.ER4
generic resource adapter: https://github.com/jbertram/generic-jms-ra

How reproducible:
easy

Steps to Reproduce:
1. add applied generic-jms-ra.rar file to the $JBOSS_HOME/standalone/deployments directory
2. unpack applied module and add it to $JBOSS_HOME/modules directory
3. update module.xml file from org.jboss.as.ee module, adding a new dependency:
"<module name="com.tibco.tibjms"/>"
4. update $JBOSS_HOME/standalone/configuration/standalone.xml, adding global modules to <subsystem xmlns="urn:jboss:domain:ee:1.1">:
<global-modules>
<module name="com.tibco.tibjms" slot="main"/>
<module name="org.jboss.common-core" slot="main"/>
</global-modules>
5.configure resource-adapters subsystem this way:
<subsystem xmlns="urn:jboss:domain:resource-adapters:1.1">
<resource-adapters>
<resource-adapter id="generic-jms-ra.rar">
<archive>
generic-jms-ra.rar
</archive>
<transaction-support>XATransaction</transaction-support>
<connection-definitions>
<connection-definition class-name="org.jboss.resource.adapter.jms.JmsManagedConnectionFactory" jndi-name="java:/jms/QueueConnectionFactory" pool-name="CF" use-java-context="false">
<config-property name="JndiParameters">
java.naming.factory.initial=com.tibco.tibjms.naming.TibjmsInitialContextFactory;java.naming.provider.url=tcp://tibco01.mw.lab.eng.bos.redhat.com:7222
</config-property>
<config-property name="ConnectionFactory">
XAQCF
</config-property>
<security>
<application/>
</security>
<recovery>
<recover-credential>
<user-name>tibco</user-name>
<password>tibco</password>
</recover-credential>
</recovery>
</connection-definition>
</connection-definitions>
</resource-adapter>
</resource-adapters>
</subsystem>
6. run server $JBOSS_HOME/bin/standalone.sh
see - java:/jms/QueueConnectionFactory is registered
7. run $JBOSS_HOME/bin/cli.sh
8. execute commands in cli:
-->/subsystem=jacorb/:write-attribute(name=transactions,value=on)
-->/subsystem=transactions/:write-attribute(name=recovery-listener,value=true)
-->/subsystem=transactions/:write-attribute(name=jts,value=true)
-->:reload

Actual results:
connection factory java:/jms/QueueConnectionFactory isn't registered

Expected results:
connection factory java:/jms/QueueConnectionFactory is registered