An iplanet web server 6.0sp6 which runs 1.3.1_09 fails in reconfig:
It was failing also 6.0sp5 + 1.3.1_07 with or without tracing options enabled, with the same errorid (52554E54494D450E4350500624 means runtime.cpp, 1572)

We can trace compilations using the following options

config/magnus.conf:
StackSize 1024000

config/jvm12.conf:
jvm.option=-XX:+PrintCompilation
jvm.option=-Xbatch
jvm.option=-XX:-BackgroundCompilation
jvm.option=-verbose:jni
jvm.option=-Xcheck:jni
jvm.option=-XX:+ShowMessageBoxOnError

we get a message from a guarantee()

~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
...
b com.iplanet.server.http.util.XmlNode$XmlIterator::next
...
Adding web application (/installwizard2) at
(/reports/www/nds/webapps/installwizard2)
Adding web application (/supplysponsor) at
(/reports/www/nds/webapps/supplysponsor)

!b org.apache.commons.digester.Digester::endElement
...
Error ID: 52554E54494D450E4350500624 01
...
Internal Error
Fatal: expected compilation of this method to bail out; see bug 4307310
Do you want to debug the problem?
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

The Fatal message which differs from the usual "An error has just occurred, do you want to debug the problem?" comes from jvm runtime.cpp, 1572

The whole log is available in attachment or from:
/net/lira.italy.sun.com/pts/AMER/63449920_BI/oct_17/errors-ndstest
http://pluto.italy.sun.com/Case/BI-PERFORMANCE-SERVICES/63449920/oct_17/errors-ndstest