With sudo and pam_musclecard, the user is prompted for the smartcard PIN
which unlocks the private key for a nonce challenge.  The actual prompt
is "Please enter pin," as I noted above.  sudo works fine in this
environment.

I did note that when gksu is run from the command-line that the PIN
prompt is dumped to stderr by gksu.  Does this help?

I can help in testing if you need it.

-- 
gksu not prompting when pam_musclecard in use
https://launchpad.net/bugs/52018

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