Also re "(I'm using the CLC private IP, because when using the public
IP, the returning packets are from the local address, and dns doesn't
like it.)" ..

Thats a mix of two issues i think ..

Lets say your instance FQDN is euca-172-19-1-2.eucalyptus.internal /
euca-10-2-2-110.eucalyptus.uec.domain.com (i.e in the admin GUI, you set
the domain to be "uec.domain.com")

You have to delegate uec.domain.com to the CLC's public IP in
domain.com's DNS records, and on you're local resolver, delagate
"internal" to the CLC's public IP ... This is the only way I've managed
to hack euca's DNS setup to work..

The second possible part of that issue is traffic returning from the
wrong interface - thats hairpin NAT not being applied correctly. I have
another 1 line patch here for this
https://bugs.launchpad.net/ubuntu/+source/eucalyptus/+bug/676167

and

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https://bugs.launchpad.net/bugs/680301

Title:
  DNS Search Domain in instance /etc/resov.conf should be set by DHCP

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