Yeah, any bonuses the weapon gets from mark, etc, are added to the attack to determine how adrenaline behaves. For instance, if you have a flying Fahrenheit, 75 fire quanta, and adrenaline on it, it will attack 1 time, not 3 times; it doesn't use the base 5 attack to calculate adrenaline, it uses 5 + fiery, or in the case of dagger/hammer/short bow, the +1 for the matching mark.