I went in to the museum yesterday to work some more on this problem. I found that the Java version is 8 or "1.8" as displayed in JMRI. Checked the log files, the last line is always that shutdown completed normally. I thought maybe my two Jython scripts could be the problem so I disabled them and the problem persisted. As I previously mentioned, Java is shown in Task Manager as still running after the shutdown. I can't "end task" on it. I guess I should have looked in the Windows syslog. That will have to wait until my next trip in there.
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Any thing else I can do to investigate this?
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George