S-Man, Your in room measurements I assume were taken from the listening position. first, use 1/12 smoothing.
Your sub should be brought at least 5db down imo. Your trying to compensate the 40hz dip with the sub but clearly you should find another placement for your subs . As you can see, you have a serious dip at from 35hz to 50hz. since you cross the sub around 80hz, due to how long those frequencies wavelenght are, as long as your sub are within 3.5 feet from the mains, the subs are <<time aligned>> with the mains. the rule is 1/4 wavelenght. 80hz wavelenght is 14 feet. 14/4 is 3.5 feet.
My experience with subs have been constant, they measure easily flat, at the LP, up to 60hz/80hz if you place them on the front wall, as close as you can from the front wall. this placement helps to remove dips at the LP because it bring the cancellation from the front wall up in frequencies. you should try it at least.
secondly, you have a serious dip at 100hz which is probably easy to deal with by moving your mains around. the 100hz is a cancellation from the front wall or maybe your listening position in relation to the back wall. try either to move your listening position, the 38% rules helps. do not place your LP at the 50% of the room length, nor the 25%!
good luck