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Mine can get a little flighty too and with some, that's just the way they are. Try keeping them in a smaller cage, that might calm them down. If you have them mixed in with the large fowl, they might be getting picked on which would cause them to run because of being pecked at so much...my little roosters are the friendiest, but hens can be a little jumpy.
I agree when they are mixed with the larger ones they are on 'survival mode' and not as relaxed. I used to have mine together, but now they are all separate. It does vary though, I had a rooster that won best of breed last year but he was such a freakazoid whenever I tried to pet him, so he ended up as soup. I chose the calmer of the two who unfortunately is not throwing very good beards, so next year I'll be putting the other fellow back in with the hens, and keeping 'Bo Diddly' as a pet with my 2 pet quality hens. He is such a good boy. This year I'm really focused on personality on who I keep as most of what I enjoy about d'uccles is their personality.
You can also try picking them off the roost for a cuddle at night, wrap them in a blanket and scratch their beard and rub the back of their necks while they are cozy and won't flap all over, so they realize you are not hurting them.