This got fixed in tomcat5.5 and tomcat6. from http://svn.debian.org/wsvn/pkg-java/trunk/tomcat5.5/debian/tomcat5.5.init?op=file&rev=0&sc=0:
# Clean up and set permissions on required files
find "$CATALINA_BASE"/temp/ -mindepth 1 -exec rm -fr {}
--
David Pashley
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Nihil curo de ista tua stulta superstitione.
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