Directory /var/lib/eucalyptus/keys/<Cluster Name> is only relevant on
the CLC, since it needs to have keys for multiple clusters. For all
other components the keys are in /var/lib/eucalyptus/keys. Hence, if CLC
and a CC are co-located, you will see the same keys in two places.

Cloud key is created when CLC starts for the first time. Cluster and
node keys are created (by the CLC) when the cluster is registered.
Eucalyptus version of euca_conf --register-cluster or --register-node
attempts to ensure that the keys for two hosts match by using rsync and
rcp. UEC version of the file attempts to do the same but with somewhat
different code.

I am not sure how one ends up with mismatched keys on a fresh install.
(If synchronization didn't work you would have no keys on the downstream
side, such as CC or NC.) If you run into this again, I would look at
modification times and checksums of all *.pem files under the
/var/lib/eucalyptus/keys tree.

-- 
[maverick] Inconsistent certificates prevent CC to start correctly (no cc.log)
https://bugs.launchpad.net/bugs/627963
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