But you can still counter Junkers with good hwachafish or hwacha-spire with good crew. Or you can kill it's secondary engines. And, of course, good hwacha-blender galleon is a nightmare for Junkers.
Honestly, at the highest levels of play, all other things being equal, hwachas are pretty ineffective against well-crewed focus-firing metajunkers. Particularly once your crew is trained in "peaching" (duckspeak for rebuilding to within one click and waiting), you can easy rebuild a downed gatling immediately after a hwacha barrage and gatsnipe the hwacha right out until the rest of your systems are back online. Blending is the only totally reliable (perhaps excessively so!) counter to a junker
Spires are even worse off - so much as look at a spire with an artemis or a hades and it falls to pieces. Focus fire six of those guns on a spire? Good night, Irene.
The same with close range galleons. With its exposed guns, sluggish movement, and huge hull profile, 6x artemis-hades fire will simultaneously pierce, explode, flame, and shatter everything on the ship reliably at ranges up to 1300m. Is Mr. Galleon getting too close? Put 'er in reverse.
This is my experience, at least.
Of course, positioning miracles will mitigate all these limitations. But why not take the stronger build, create the same positioning magic, and have an even better outcome? I've never been one for handicapping myself intentionally.
As an aside, what I would say generally is that if the junker is to have its primary stats nerfed, then it should somehow be made less vulnerable to blending. The current lack of junkers in competitive is very telling - basically, a team's reliance on junkers frequently leads to the opposing team's switch to a blender-based hard counter in the lobby. It would be much better to find a happier middle ground, I think.