Not pretty sure if anything can be done w.r.t configuring region specific replication. Just sharing my thoughts.
Guess we will have to go with something similar to the above, wherein each agent is given a unique id.
Please have a look at this:-FAQ: How to configure replication agent to specific site content
// It talks about How to configure replication agent to specific site content
More reference posts:- http://www.aemcq5tutorials.com/tutorials/restrict-content-specific-publishers-aem/
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I really did not get your question.
There should not be any problem If you have two different authors connected to individual publisher.
Could you please explain more about relationship of all these AEM instances ?
Just explaining basic functionality of replication agent.
Create one replication agent on Author A which connect to Publish A and same for the Author B.