Wow!
I know all set ups are different as well as the flocks. So it may be a trial and error situation.
My hens raise their broods with the flock... to me sooner is better than later... once the chicks know their mums voice and vice versa and are able to keep up with her... usually by your current stage. Early on I do block the other birds out also to make sure the chicks don't accidentally fall out and not find their way back into my boxes.
By this time she should be clucking quite well to them and her protective broody hormones should be primed for some tail kicking! Even the lowest and most bantam of my flock would wait and get sneak attacks on innocent passers by... just so they know not to mess around with her and babes. *Most* "roosters" will not mess much with chicks and may eventually bond some and call them to treats even. They will call the other ladies to eat the "chick" feed or anything else you try to offer specially. Pullets and cockerels can often be the biggest pain to a broody hen... as they usually have something to prove. Since your broody is already lowest int he pecking order, that may not be the case for you. Also I'm unsure of your flock age.. but if the "rooster" participates in pecking on a hen he would be headed for the soup pot in a heart beat. I am fortunate enough (now) that all my cockerels get to grow out in a stag pen to gain some manners before accessing the ladies. It really helps give them a chance to mature past those raging idiot teenage hormones, that every species seems to go through!
Adding extra feeders and some visual barriers (plants, chairs on their side, hay bale, whatever ya got that fits and is safe) to disrupt line of sight can be very helpful. Also that you've already used look but don't touch will have gotten other flock members more used to the sights and sounds of the chicks and take away some of the curiosity. Here, some curiosity is okay and not the same as relentless chasing and pecking. The chicks usually learn quickly which flock members to avoid.
I like to allow the first integration to be somewhat supervised so I can identify any problems (bully's) before going full time.
I also prefer a flock raiser or chick starter crumbles (instead of layer) for my whole flock and supply a side dish of free choice oyster shell for active layers. This makes it easy to feed them all together and not worry someone will have too little of some or too much of other nutrients.
If you aren't comfortable yet... try and get them together way before 6 ish weeks... as broody hormones are often waning and it can be harder to integrate the little's.
Congrats on your babies!
