are you using bartender? quick fix:
in /libs/libactionbutton-1.0/libactionbutton-1.0.lua:
line 1173:
CooldownFrame_SetTimer(self.cooldown, locStart, locDuration, 1)--, nil, nil, true)
line 1185:
CooldownFrame_SetTimer(self.cooldown, start, duration, enable)--, charges, maxCharges)
in /petbutton.lua (this is for the pet bar):
under line 233:
self.cooldown:SetSwipeColor(0, 0, 0, self:GetEffectiveAlpha() * 0.8)