I'm sure you know that this is not a lot of money for a CEO or founder to make in the private sector. I would also assume that the reason the organization is so well run and effective is largely in part to the founder. This means that this person is good at what they do, which means they could likely earn $200k+ in the private sector. So, they have effectively taken a $50k pay cut to work on something they think is commendable and are also (likely) working much greater hours on their charity than they would in the private sector. I guess my point is $90k isn't that much money for a CEO or a founder of an organization. It IS a lot of money for one that isn't doing squat... but then so would $50k. Why do we expect people that start charitable organizations to make demonstrably less money than they could in the private sector? This makes no sense to me.
Call me old-fashioned, but these guys just strike me as more interested in their personal fame and going on an exciting crusade (have you seen that pic of them posing with assault rifles and the Ugandan army?) than in actually helping Ugandan children. Especially when Kony is no longer even active in Uganda, I wonder why else they would continue to fund an army that is itself known for sexual assault and other atrocities.