If you're talking about the head of ATS, Maharashtra, he was killed during the Mumbai attacks by the terrorists. All the other policemen in his vehicle died and there were plenty of eyewitnesses who saw this.
Secondly, the Malegaon bomb blast was a bomb blast in India and those accused of it including an officer in Indian army have now been arrested and are in jail while the case is under trial. Where did Pakistan come into all of this and if the government was complicit, why are they conducting a thorough probe and arresting those involved?
You couldn't shut a fly up because you're uninformed. Anyone who knows the ground realities in India knows that the probes and action against the Hindu terror units who are involved in Malegaon and Samjhauta Express blast are as strict as possible. Because many of the the people accused are members of RSS which is a BJP supporting organization and the current government desperately wants them to be indicted as it would be a big loss of face for BJP who were dependent on RSS for quite a while.
It is people like you who are "proud of what ISI has achieved if he is a Pakistani" because of whom this bad blood between the two countries continues to persist which leads to lots of needless military expenditure and deaths of thousands of innocent people on both sides.
