The clipping through walls is far worse than just attacking through walls of houses and structures. That makes it annoying and frustrating indeed. But the clipping problems are a lot worse.
I’ve had Hunters phase right through the wall / ceiling of a bunker on several occasions. Most recently on the weekend, I was running around a bunker (Minken, I think) trying to find the power switch to unlock the safe and war rooms and could hear multiple angry Hunters outside who had detected me. From the detection meter, they seemed to be right above me and were following me around as I was exploring through the bunker.
I went down the spiral staircase to a lower level of the bunker to enable the power. On my way back up the stairs, 2 Hunters had clipped through the ceiling and were stuck in the spiral stairwell. I managed to kill them both, but ended up stuck in the lower level because their wrecks were blocking the stairwell and I couldn’t get back up. I had to fast travel out of the bunker to the nearest safe house and find my way back to the bunker.
Two nights ago, I was playing through the mission where you have to find the bunker with the enemies that were trapped inside by soldiers (can’t remember the mission name). We were attacked by a swarm of runners outside the bunker, which attacted a nearby pack of hunters as well. This fight got us detected by the robots trapped inside the bunker. They proceeded to clip through the bunker door and join into the fight.
Last night while visiting the Hermelinen Bunker for the first time, ticks were walking and attacking through closed, locked doors like the doors weren’t even there.
A few days back my friends and I encountered a hunter that had partially phased through a wall at the bunker with the rail lines near Muskudden but was stuck there. He was invulnerable, but was able to deal damage to us. Shooting it seemed to produce the visual effects that he was receiving damage (the sparks), but his components were not breaking off and he wasn’t taking damage. We were 4 players, so had lots of firepower and explosives to throw at him, but to no avail. He was able to do damage to us just fine though.
That’s not to mention the dozens of times my friends and I encountered random robots have clipped through walls of houses, churches, hangars, warehouses, barns, etc and attacked through walls. Or sometimes just made it right inside a structure that they didn’t fit in (like a hunter in a house).
Outside of bugged missions that break game progressions, the clipping issues should be one of the top priorities as it just breaks the game so badly. It breaks immersion, which is bad in itself, but totally breaks the game mechanics as well.