I did check your math,
WAR (BB>BB>SE):
(((2 * (150 + 600 + 1400) / .9 + 610) / 9) * 1.0556 + 83.33 * 1.11) * 1.2 * 1.0476 * 1.0272 * .75 * 2 = 1403.18 enmity potency per GCD
The math you did for Berserk still implies the 50% damage dealt increase when it's closer to 40%. I also don't see how the 5s pacification debuff gives Berserk an effective duration of 10s for Weapon Skills.
5/90 = .0555 with -100% damage dealt = -5.55% damage dealt overall for WS, add that to the 40% buff for 20/90s and you get 8.88%-5.55% or 3.33% damage increase for WS.
PLD (without WAR):
(637 + 83.33 + 25 + 25) * 1.1 * .8 * 2 = 1355.78 enmity potency per GCD
You have PLD averaging 637 enmity per combo instead of 683 because you are still using the Halonex3 > Fracture combo which provides less enmity even though you compared it to the WAR combo where you sacrificed Fracture use for increased enmity.
WAR (BB>BB>SE): Revised
(((2 * (150 + 600 + 1400) / .9 + 610) / 9) * 1.0333 + 83.33 * 1.0888) * 1.2 * 1.0476 * 1.0272 * .75 * 2 = 1373.9 enmity potency per GCD
PLD (without WAR): Revised
(683 + 83.33 + 25 + 25) * 1.1 * .8 * 2 = 1436.74 enmity potency per GCD
