It is very convenient for hyper-nationalists to go on about Pakistan's might / resolve and then conveniently resort to the "might is right" argument when it comes to confronting the US. There have been numerous examples of smaller States tackling more powerful ones, but it requires a fair degree of skill/statecraft and courage (neither of which our political or military leaders seem to have in any adequate quantities). The silence is shameless (toothless statements aside) and the lack of resignations is a recurring joke.
There are many ways to deal with the US by effectively creating a counter-narrative and correctly using our leverage over them (i.e. over the Afghan end-game, over NATO supplies, over real or imagined global threats emanating from FATA, over becoming even closer to China, etc.) --- but the bottom line is that it seems nobody in the government / civil service or military has the spine or the intellect to do this. Of course the US has a number of tools at its disposal to bring the pain, but I believe we make it far too easy for them to monopolize the leverage balance in our relationship.
Also, just a technical point: while our Armed Forces did agree to coordinate drone strikes and even offered the US various air bases over the previous years, the US still unilaterally takes out some targets --- usually the ones allegedly supported by our Deep State.
Those tasked with defending our sovereignty should speak up.