I'm inclined to say there are two factors at play that you didn't mention - firstly, that in today's post-Cold War world, there are very few foreign regimes you can still use as antagonists without making your movie a lot more politically controversial than you want, especially if you're hoping your movie will play all across the globe. Leaving you with a shortage of potential baddies, really just limited to terrorists with or without protection from higher up, or originally well-intended government networks or entities gone rogue. Or, you know, aliens from outer space - alternatively, you can just set the whole movie in a fantasy or sci-fi setting to give you more freedom.

And secondly, yeah, ripping the government or its obsession with controlling its citizens definitely is popular - possibly because the current generations of Western moviegoers have never really seen what happens when a government breaks down into anarchy, nor seen wars in which patriotism and supporting the government really was badly needed for the nation to survive. Plus the general trend towards more individual, independent thinking and less respect for authority just because. It may be a temporary thing, in the longer term, especially as the Asian influence in the world grows - and the share of older citizens balloons.