Since Musharraf can not be trusted, nor can anyone assure that he will remain in power, this amount is money well-spent.
The $100 million has been spent over the past six years to train Pakistani security personnel in the U.S., begin construction on a nuclear security training center in Pakistan, and supply equipment such as fencing and surveillance systems.
Pakistan has about 60 operational nuclear weapons, and for comparison's sake, the Nunn-Lugar program, which works to secure roughly 6,000 operational nuclear warheads in Russia, has historically had a budget of about $1 billion a year. Relatively speaking then, in terms of money spent per weapon, per year on nuclear security, the U.S. has been spending about 65% more on securing Pakistan’s arsenal than on securing Russia’s.
The alternative is costly and chilly to consider. Imagine the Pakistani nuclear arsenal falling into the wrong hands. The Pakistani hands are frightening enough.