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The Cookie Manager behaves OK if you don't select this option. If a single thread needs to login as multiple different users, rather than using the "clear" option, just make sure that the thread logs out of the application before trying to login again. (This is what a real user would have to do)
See \[http://issues.apache.org/bugzilla/show_bug.cgi?id=44042 Bug 44042\]unmigrated-wiki-markup Wiki Markup
This \[http://markmail.org/message/bis6om3wnpqtqin5 mail message\] has details on some work-rounds.