I think what you mean is that you have a console.war file and a console directory in TOMCAT_HOME/webapps. This is normal.
Under Tomcat's default settings, if you deploy a war file into TOMCAT_HOME/webapps, Tomcat will unpack (explode) it, creating a directory with the same basename as the war file.
The actual executing copy of the app will be the exploded WAR.
It's important to know this, because Tomcat will not automatically update the exploded WAR if you update the war file. Instead, it will continue to use the old, out-of-date code in the exploded WAR.
So when deploying a war file,
you should delete the old exploded copy.