Same problem for years with 5 28" monitors. The "perform automatic layout" just screws up more making separate for various types of files, which is not how I am laid out with 8 fences for different on 4 screens with lots of things in each. 4 monitors on NVIDIA GeForce GTX 1060 and one on USB.
After did perform auto layout, was able to get it to restore back to just had it.
In addition to whenever the graphics driver is updated sometimes but not always I lose positions on reboot as it just did which led me here. Settings are as suggested above
Other than when have to reposition fences I love it and have had for years.