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Is JAVA_HOME correct?
Jave Home is correct /user/java/jdk1.7.0_07.
Sun JDK 1.7 Update 7.
The APEX Listener is the latest stable release (1.1.4)
What you are seeing is indeed strange. Did you check WLS log file? May be it will give you some pointers for both issues, the apex-config.xml being overwritten as well as Universal Connection Pool.
Log files are running clean. It appears to be something related to the actual encryption and re-write of the config file. I am not really going to push it that hard as I plan to go to Listener 2.0 and they changed where and how the config are stored there once it is no longer in EA status but what is happening is that the listener configuration file apex-config.xml is being wiped out every time the listener starts and I have to restore it from a backup.
Edited by: David Pulliam on Dec 13, 2012 8:13 AM