Emplacements OP? Is this meant to be sarcasm? Just don't attack these bits until you can deal with it late game. Treat them like a set of deployed OKW Trucks, but less sturdy. It's not that OKW lacks tools to clean these up, OST TurboMortars cleans them up quickly too (and their smoke is awesome, often underrated!)
Oddly enough, I do struggle against Soviets, as they are rather unpredictable. USF's tactics are streamlined, and captain/lt units reveal their tech. UKF: Only thing that they got that is good is AVRE and only in specific situations. Rest is laughable bunch. Just make sure you don't attack their fortified position though.
OKW Stukas are rather pinpoint on target when I use them. Furthermore, OKW Stuka can destroy Major + Ambulance retreat point quite easily too, whilst wiping out any troops around it. It is just about waiting for the right moment to do it.
And there's the oblivious OST Stuka dive on retreat point too, which have been known to win games with one click.
I do not mind Allies having some doctorinal wipe stuff too for a change
I play mostly OKW. The game feels does not feel balanced at all most of the time, and it can be incredibly frustrating. I do strongly believe that Axis are the strongest in most stages of the game.
It does sound to me of hypothetical scenarios of you being outplayed. You could easily replace every unit from your description by an Axis counterpart, and get exactly the same scenario from an Allied perspective (but cheaper and still more efficient).