Regardless of the type of weapon used, infrastructure/IC re-generation is too rapid. Europe and Japan are rebuilt in a month, and (I think?) without a cost to IC for reconstruction. Perhaps there needs to be a difference between damaged and annihilated IC/infrastructure. If it's damaged, it can repair itself with a slight cost in industrial production (maybe as part of the replacements slider). If it's eliminated, it needs to be rebuilt as if it was never there.
You mistake 'IC repaired to full capacity' for 'untouched'. There's a huge difference there. Most of the 'permanent' damage was to civilian structures that aren't represented in game. You can fix the factories, board up the broken windows, route around the blocked streets, and generally repair the area so that strategically it is close enough to the way it was, but on the ground, things may look very different. Given necessity (and if you're getting strat bombed, you've got that in spades), you can make a lot of things work that you wouldn't expect.