If the log excerpts you have provided are complete, the certificate
chain presented to the server in both cases is different.

2010-03-01 19:56:39,120 DEBUG
[org.jasig.cas.adaptors.x509.authentication.handler.support.X509CredentialsAuthenticationHandler]
- <--examining cert[120005025] CN=ECRaizEstado, O=SCEE, C=PT" from
issuer "CN=GTE CyberTrust Global Root, OU="GTE CyberTrust Solutions,
Inc.", O=GTE Corporation, C=US">
2010-03-01 19:56:39,121 DEBUG

The above certificate, which appears to be the one that's causing
problems, is only presented to the server by IE, which explains why
authentication succeeds in Firefox.  The certificate above appears to
be at the root of your trust chain, and I'd imagine it's missing in
Firefox.  You could confirm that by exporting the cert to a PKCS12
file and examining its contents with openssl:

openssl pkcs12 -in exported-file.p12 -info

M

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