Preheat oven to 350˚.
Heat a sauce pan over medium heat. Place butter in heated in pan, once melted add the jalapeño and garlic. Allow to cook for about 1 minute and whisk in the flour and cook for another minute.
Slowly whisk in the half and half until it is smooth. Cook for about 10 minutes until the sauce has thickened up. Stirring occasionally.
In a large bowl mix together cream cheese and 1-1/2 cups of cheddar and start mixing it together. Add in the shredded chicken 2/3 of your bacon and continue to combine. Lastly add in 1/3 of the cream sauce and finish mixing together.
Spread another 1/3 of the sauce across the bottom of your baking dish.
Spoon chicken and cheese mixture into the cooked shells and place in the baking dish. Top with the rest of the sauce and cheddar cheese.
Bake for about 20 minutes, until the cheese is completely melted, top with the rest of your bacon and some sliced jalapeños and serve.