I culture lobster roaches, and I found the easiest way to separate the tiny babies from the others is as follows:
Use cardboard tubes instead of egg flats. Get two containers that will rest inside each other with at least a 1" gap at the bottom. Drill small holes in the bottom of the inner (top) container. Take a cardboard tube that's full of roaches, place the end of it in your new homemade sifter, and shake it out. When all the roaches fall into the sifter continuously tap it with some force to knock the babies through the holes. When you're satisfied that you've got as many as you can, repeat with another cardboard tube until you have the desired amount of little babies. Note: The outside (bottom) container will need a vaseline barrier to prevent the babies from climbing back up. Leave the inner (top) container free of vaseline so that the bigger roaches can simply climb out after you stop tapping on the sifter.