Just a thought, but to confirm / clear whether its a glassfish issue, have you tried taking the same certificate and importing it into say SunOne Web, Apache or IIS and see everything works as expected?
I checked out your cert in Firefox 2 and IE 6 and the Issuer is different across the two. I don't know if thats because I'm not receiving the intermediate or its just a difference in the browsers.
Also, just for my own curiosity, do you not have any plans to front-end your app tier with a web-tier?
HTH,
Andrew
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