Result report.
Ctrl + Shift + F11 alone will not fix it.
Move to Hub and save. Kenshi restart. Return to Squin.
Fixed ?? Continue observing.
Also, black line on the floor at entrance to Bug house.

Thanks. @泥遊戯
I just had a conversation with another mod author who pointed out that you might have to unload the zone completely before it'll properly regenerate and saves the new one. If it fixes it for you that's awesome. I can update the mod description with what you found if it stays fixed.
Thanks again.

P.S.
When started Kenshi again, the black line disappeared.
Continue observing.

I think the Squin Weapon Shop has Fixed.
At least, the probability of bug has dropped.
Armor shop has not Fixed.
Ctrl + Shift + F11 will display "Fixed 44 building".

There is a bug that gets stuck under the stairs in the bug house.
Occurs when construction is done by adjusting the height high and tilt.

By that do you mean that character's can get stuck under the stairs?

Yes.
It is stuck in the under stairs groove.

Ok. That's not strictly a bug with my mod but I can block the area so navmesh doesn't generate under the stairs anymore. I was a bit worried that could potentially happen but never ran into the issue myself specifically. Guess I can go ahead and block area. Thanks for feedback.