This was too long to post as a comment so I put this here :) Hope you don't mind.
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@Advent Avenger: I have the same issue with greyed out skills as Ser Lancelot (in a new campaign).

I've been digging through the source files and I think may have found the issue we are both having.

In your mod you register the perks with a soldier class name like so:


Template.Requirements.RequiredSoldierClass = 'Sharpshooter';

However in the LW Perk Pack I found this reference which looks like is remapping the soldier class names in the game (even the base classes):


[XComGame.X2SoldierClass_DefaultClasses]
;-SoldierClasses="Grenadier"
;-SoldierClasses="Specialist"
;-SoldierClasses="Ranger"
;-SoldierClasses="Sharpshooter"
+SoldierClasses="LW_Assault"
+SoldierClasses="LW_Shinobi"
+SoldierClasses="LW_Sharpshooter"
+SoldierClasses="LW_Ranger"
+SoldierClasses="LW_Gunner"
+SoldierClasses="LW_Grenadier"
+SoldierClasses="LW_Specialist"

I have never written a XCOM mod before my background as a programmer makes me think that perhaps all our games' "Specialist" class soldiers are internally (because of the LW Perk Pack) now actually "LW_Specialist" and that's why the requirements do not meet those in your mod since that one is looking at the specific class name "Specialist" + rank requirement.

Would it be possible to expose the soldier class names your mod targets in the .ini files? That way users with the LW Perk Pack enabled could set them in the ini and (hopefully) the change to your mod would be minimal.

Something like (in INI):

PSIONIC_CLASS_NAME = "PsiOperative";
SPECIALIST_CLASS_NAME = "Specialist";
(etc)

then we could remap the string to say:

SPECIALIST_CLASS_NAME = "LW_Specialist";

for our installations without affecting the default state of this mod.

Again, apologies for making some assumptions here, I've not written a mod before myself and am not sure if what i'm suggesting is an "easy fix" or quite involved. I just thought this might help the conversations I've seen on this mod page in a semi-constructive way :)