domain name system - Windows Server 2008 - Strange DNS resolution between clients and server

We have a new Windows 2008 R2 installation running as a
domain controller with DNS. We also have external public IP's which NAT to internal
resources on our network. An external DNS has been configured with these external public
IP's to resolve the internal resources on our company domain
name.

These same DNS records have
also been configured on the internal Windows 2008 DNS to map to the internal private
IP's (where the A record is for a resource not part of the AD, i.e. like a custom
company website URL etc).

Our problem is that
even though internal clients or other member servers have the primary DNS setup as the
Windows 2008 DNS server (and the router set as the secondary DNS) the DNS query would
intermittently resolve to the external public IP (which won't work as the Cisco router
blocks it). Even when you do a nslookup on the resource it will give the Windows DNS as
the primay DNS, return the correct internal IP. But still when you ping the resource or
try to access it via a browser (as it is a website) it would then resolve to the
external public IP.

Why on earth would it do
this?

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