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if you enable enable-global-access-to-classes to true in weblogic-ra.xml, all classes inside RAR will be loaded in a classloader which is parent of all ear appliactions; if set to false, all classes inside RAR by default will be loaded by a sub-classloader of ear.
jars in EAR\lib are always loaded by EAR's classloader.
Put same jar in multiple places is not good practice any way.
My suggestion is to re-arrange your ear/rar to always just keep one copy of each jar.