Cook the squirrel (not the hearts and livers) in either a slow cooker for 5-7 hours, or an Instant-Pot for 25 minutes. Allow to cool and strip the meat from the bones.
Dice the raw hearts and livers then set them aside. Give the pepper, onion and celery a rough chop.
In a large heavy pot over medium-high heat, saute the pepper, onion and celery for 7-10 minutes or until the onions are soft and cooked through. Add the garlic and diced hearts and livers. Cook another 3-5 miinutes.
Add the rice, stock, boned-out squirrel meat, and water. Add the Cajun seasoning and thyme. Stir well. Toss in the bay leaves. Bring the mixture to a low boil, then reduce the heat and simmer, covered, for 25-30 minutes until the rice is done. Fluff with fork before serving.