The web service class that causes all the trouble declares that it throws
some custom exceptions.
In the generated client code, these get turned into @WebFaults.
It is on these @WebFaults that the java web start version of the application
is crashing. I removed all of the throws and converted everything into
throwing an unchecked RuntimeException and everything works. So it seems
that there may be a bug in how those @WebFaults are handled by the class
loading in java web start, but not with jax-ws and java web start in general.
Let me know if you would like any more information or a test project.
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