In bowl, stir pumpkin, cumin, nutmeg, salt and pepper to combine and set aside.
In small skillet, heat 1 Tbs. coconut oil over medium heat and saute the onions and red pepper
In another large skillet, coat lightly with 1 Tbs. of coconut oil and warm tortillas gently on either side. Repeat with both tortillas. Once tortillas are warmed, remove from heat.
Spread pumpkin mixture, onions and peppers over 1 tortilla. Then sprinkle with cheese. Top with remaining tortilla.
In large skillet, heat 1 Tbs. oil over medium-low. Cook quesadillas 1 at a time, turning once or until browned on both sides, about 3 minutes.
Cut into wedges and enjoy hot!