Microsoft Office Access 2007 Developer Edition FAQ Update
Updated the below section to show how Access 2007 is smarter than I initially though.
Q: How do I set the trusted locations using the runtime?
Access 2007 will go through all the registry entries under the Trusted Locations key. So you can call your trusted location as you desire so long as it doesn't conflict with another applications key. You may want to use your company name and app name or a GUID.
HKCU\Software\Microsoft\Office\12.0\Access\Security\Trusted Locations\Company Name App Name
I'm planning on adding this functionality to the Auto FE Updater. Soon I hope. As well as the Jet 4.0 Sandbox and Access 2003 Macro security settings.