The only cavity that will work with the twin injector in the Essential mold will be the bottom most cavity. All others will deal you fits as you've seen and the injector set-up has to lay across the mold's injection port at 90 degrees. When injecting the multi cavity ripper baits, which are formatted in the mold to make two sides and not a top and bottom, I suggest using some junk plastic and fill the mold. Let it cool enough to handle the plastic. You can leave or remove all of the baits but leave the runner in the its cavity, but trim it so the bottom of the top most baits gate is the top of that plastic piece. Now inject the mold using the two colors. By shortening the travel distance the plastics have to move together, thus preventing much of the mixing, you'll get reasonable laminates. Since the 3" Essential Ripper has two injection ports you can do this to both ports and get two baits per shot.
The ned, or finesse, baits you show have no defined top or bottom and will be perfect each time. Its all in how the baits are formatted in the mold.