In a large skillet cook bacon over medium-high heat until crisp. (Reserve 6 slices uncooked for the top) Remove with a slotted spoon to paper towels to drain, leaving drippings in skillet. Crumble or cut into bite size pieces.
To the drippings add onion, poblano and red bell pepper. Cook over medium-high heat for 5 minutes or just until softened and beginning to brown. Add garlic, cook for 1 minute longer. Remove from heat.
To a large mixing bowl, add beans, ketchup, molasses, mustard, vinegar, liquid smoke, brown sugar, pinto bean seasoning, salt and lemon pepper. Add cooked vegetables and crumbled bacon. Mix until fully combined.
To bake: Preheat oven to 325°F. Spray a 3 quart baking dish or oven safe skillet with cooking spray. (Round or rectangular) Pour bean mixture into the dish. Top with reserved uncooked bacon slices.
Bake for 1 ½ - 2 hours, until bubbly and reduced. Check at 1 hour and lay foil on top if needed, to prevent bacon from over browning.
Let stand 5 minutes, then serve garnished with chives, if desired.