Thanks for everyones help but the culprit has been found...drum roll please ....NETBEANS!!! Since netbeans and the version of tomcat are on the same server(just for testing purposes). When I would do a clean and build in netbeans it would actually go into my webapps folder within tomcat and get rid of my WAR file. And as I understand this(correct me if i am wrong), once tomcat finds out that this WAR file is gone, it would delete that folder.
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