Might want to consider separating out the roo for a week or two. Might help the rest of the flock learn to accept the babies at least, and give him a bit of time to cool his head about the fluffy little "intruders" that he's out to get.
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That's about as good as you can expect at this point, that no one's getting hurt and the little ones can roost at night, even if they're the first ones down in the morning and last to eat.Well, it's been a bit, figured I'd drop in for an update. The littles are now semi-consistently at least, heading for the coop at night (I've been locking up the barn cat and letting them free range at end of day). They are sleeping up on the roost with the bigs, but immediately get down and hide under their old sleeping box until everyone's done eating and exited the coop in the morning. Overall, it's taking much longer than I expected, but no one's been hurt since that one day a long time ago. Soon they will be 9 weeks old - they seem awfully small for that age to be honest.