Don't count out the conspiracy theory here - She was a problem for Musharif. He's our guy. If say, someone close to us or him took her out with the look of an Al Queda attack, it's a win win. Musharif gets his problem (and ours) out of the way, and the 'little' people as you say look to Al Queda as the pricks they are. That's what is happening in Iraq now.
Sometimes someone has to take one for the team for the benefit of everyone else. In this case, possibly she did.
It's only going to be a positive this happened.
However in the short term, it does create a little uncertainty. And the market hates that.