The longer the chicken has to marinade the more flavorful it will come out. Don't let your chicken Marinade longer than 24 hours. Your chicken may take longer or shorter to cook depending on the size of your chicken and oven. Start checking the internal temperature of the chicken for around 40 minutes if the internal temperature reads 165 degrees F your chicken is done. If you don't love spice remove the ribs and seeds from the jalapeno before you add it to your green sauce.