I can confirm this now, too.
Using boinc 6.2.12-1 and ca-certificates 20080514-0ubuntu1 on Ubuntu Intrepid.

I've done "dpkg-reconfigure ca-certificates", but all certs were enabled
already and it made no difference after restarting boinc-client.

It looks like WCG has a new certificate, from a new issuer ("Entrust.net
Secure Server CA"), which is included in the upstream boinc package, but
not in ca-certificates.

I've extracted the "Entrust.net Secure Server CA" from BOINC's cert bundle, 
pasted it into /usr/share/ca-certificates/entrust.crt" and then activated it 
from "dpkg-reconfigure ca-certificates".
Now, the data could be uploaded to WCG successfully again.

** Changed in: boinc (Ubuntu)
   Importance: Undecided => High
       Status: Confirmed => Triaged

** Summary changed:

- no authentification with CA certificates
+ "Entrust.net Secure Server CA" certificate missing for WCG

-- 
"Entrust.net Secure Server CA" certificate missing for WCG
https://bugs.launchpad.net/bugs/246205
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