Jason,

> I have a freebsd 7.0 RC3  server running postfix amavisd-new clamavd and
> SpamAssassin...  Having just upgraded ports I believe they are all current
> releases
>
> In this set up I am lead top believe that Amavisd-new handles the SA config
> but I did not see a process for spamd so i enabled in rc.conf.

There is no need for a spamd process in this setup - think of amavisd
proces as an equivalent of spamd (in that it calls a SpamAssassin library
of perl modules), but speaks a different protocol: amavisd speaks SMTP,
spamd speaks spamc/spamd protocol.

> I am not  seeing any x-spam related headers in the long message header
> but the GTUBE test message was discarded so it appears to be working
> any thoughts as to what happened to the headers and should i even care?

The most likely reason for absence of X-Spam-* header fields is that
the recipient was not considered local - check your setting of 
@local_domains_maps (or %local_domains or @local_domains_acl).
X-Spam-* header fields are not inserted for outbound mail (i.e. when
recipient is not considered local). Check the log (possibly at elevated
log level) to make sure.

  Mark

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