If those applications are in focus, PowerToys may not function unless it is elevated as well. PowerToys only needs elevated administrator permission when interacting with other applications that are running in administrator mode. Enable Always run as administrator in the PowerToys Settings.
Inside the General page, select Restart as administrator. Recommended: PowerToys will display a prompt when an elevated process is detected.There are two options for PowerToys to support applications running as administrator (with elevated permissions): This can be addressed by also running PowerToys as an administrator. If you're running any application as an administrator (also referred to as elevated permissions), PowerToys may not work correctly when the elevated applications are in focus or trying to interact with a PowerToys feature like FancyZones.
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