In this case, even though the BLA/BLF are propped up from across the Western border (don't want to go there on this thread, that's a discussion for an other thread), they are the product of genuine grievances of the Baloch people. And they are not ideologically driven as the TTP are. So the dynamics are different. While the people of FATA support Pakistani military operations against the terrorists, the situation is a bit more complex in Balochistan, & the Baloch nationalists try to justify their terrorism exploiting the grievances of the Baloch people.
Right now, there is a lot of interference in Balochistan coming from the Western border of Afghanistan. Even Karzai admitted giving refuge to over 200 Baloch nationalist leaders. Once the end-game in Afghanistan draws nearer, & the foreign interference in Balochistan stops, violence in Balochistan will diminish, just like it was a few years ago.