Sorry, but at the speed I was writing, it would have taken me years to finish and I was impatient. So here is a synopsis until the end/epilogue.
The boy's tribe found there was a girl's academy plane that crashed on the island with them. Upon visiting, they saw the girls had established their own governmental society and had their caste running at peak form. The girls, specifically their seventeen-year-old leader Emma, had agreed to help Ralph and Jack with their troubles. They started cleaning, cooking better, and caring for the littl'uns when no one else was doing so. The entire time, neither Jack nor Emma are letting Ralph talk or reply to their questions. Eventually, the sickness and the stress get to the boys and an extreme stomach bug virus infects many, including Piggy. The infected get put into the dungeon for quarantine, but it quickly overflows. Jack wants to kill the virus at the source, or a few littl'uns while Emma just wants more humane ways of treating the illness. They continue to fight about how they should treat the illness while it gets worse. Finally, Jack wins, and says they will kill the illness by letting them bleed. Emma and her clan got all the non-infected boys and hid them in a dark, underground bunker they found and promised to return when it was safe.