I think that estimating stored energy is quite straightforward. Take the maximum draw weight (DW) and the power stroke (PS), then use the formula 0.5 × DW × PS.
For example, consider a 50# @ 28" bow with a 6" brace height. This gives 50 lb draw weight and a 22" (1.83 ft) power stroke, so: 0.5 × 50 × 1.83 = 45.8 ft-lb.
For a straight bow, this is a good estimate because the draw-force curve is almost linear. For reflex and recurve bows, the stored energy can be multiplied by a factor of 1.05–1.25, depending on how much backset the bow has (more backset gives a higher factor). This factor arises from the draw-force curve being “fatter” for bows with greater backset. For a straight bow, the factor is 1.0, and for deflexed bows it can be under 1.0.
In my opinion, defining a draw-force factor would be the best approach for estimating stored energy for a specific bow. This factor can be determined by measuring the draw-force curve of real bows and/or by modeling it using a program such as VirtualBow.