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Do you mean as far as them still fighting when/if they are older? Well, since this is new to me, and the fighting is new as of today, I considered building a smaller banty coop. I would like to eventually have more chickens, so another smaller coop would be easy to do. 
As I stated before, I am just trying to get the opinions of everyone here to see if my thoughts on the situation are appropriate. My animals are very important to me, and either situation seems cruel. Leave them together and let the banty scream and peck and pull feathers, or separate them secluding the banty. 
I will just keep watching. I agree that when in the coop they may be more likely to forget the whole thing because there will be more to do.  Crossing my fingers!