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To disable the Interactive Windows during the execution of .py files in VS Code, follow the below steps:

1. Open VS Code and click on the "Settings" icon on the left-hand side of the screen.
2. In the search bar, type in "python.dataScience.showInteractiveWindowInFileExplorer".
3. Toggle the button to the "off" position.
4. Save the changes and close the Settings tab.

Once this is done, the Interactive Windows will not appear during the execution of .py files in VS Code.