Position of application icon is changing based on position of hidden files

Our team is experiencing weird behaviour with only application icon shown in visible area. When the hidden icons are moved to the right out of the visible area following happens:

1. If the icons are hidden, the icon position is as defined in appdmg.json
2. If user has com.apple.finder "AppleShowAllFiles" set to true or simply hit the CMD+Shift+. then the position of icon is shifted.

We thought that this is issue with the appearing scrollbar, but the shift is too big, scrollbar is only few dozens pixels wide and shift is hundred or even more(did not measure exactly). We also tried to move icons down under the visible area. The icon moves counterintuitively to the right closer to the scrollbar. Is there something we are doing wrong in appdmg.json file?

DMG when com.apple.finder "AppleShowAllFiles" is true and and hidden icons are under the visible area

Here is the content of the appdmg.json file

{
  "title": "App",
  "icon": "icon.icns",
  "background": "background.png",
  "background-color": "mintcream",
  "icon-size": 96,
  "window": {
    "position": { "x": 200, "y": 200 },
    "size": { "width": 400, "height": 400 }
  },
  "contents": [
    { "x": 200, "y": 200, "type": "file", "path": "App.app" },
    { "x": 0, "y": 600, "type": "position", "path": ".background" },
    { "x": 0, "y": 600, "type": "position", "path": ".DS_Store" },
    { "x": 0, "y": 600, "type": "position", "path": ".Trashes" },
    { "x": 0, "y": 600, "type": "position", "path": ".VolumeIcon.icns" }
  ]
}

DMG when com.apple.finder "AppleShowAllFiles" is true and hidden icons are right to visible area

Here is the content of the appdmg.json file

{
  "title": "App",
  "icon": "icon.icns",
  "background": "background.png",
  "background-color": "mintcream",
  "icon-size": 96,
  "window": {
    "position": { "x": 200, "y": 200 },
    "size": { "width": 400, "height": 400 }
  },
  "contents": [
    { "x": 200, "y": 200, "type": "file", "path": "App.app" },
    { "x": 600, "y": 0, "type": "position", "path": ".background" },
    { "x": 600, "y": 0, "type": "position", "path": ".DS_Store" },
    { "x": 600, "y": 0, "type": "position", "path": ".Trashes" },
    { "x": 600, "y": 0, "type": "position", "path": ".VolumeIcon.icns" }
  ]
}

DMG when com.apple.finder "AppleShowAllFiles" is false

Start by reproducing the three configurations in the issue using the provided appdmg.json contents and compare the application icon position with AppleShowAllFiles enabled and disabled. Read the contents positioning and window size settings first; done means determining why the configured position changes and preserving that position when hidden entries are moved outside the visible area.