Using "EnableWarning" setting in to configuration file and "Enable Warning" checkox in to "Options: General" tabs for command confirmations.
The Enable Warning checkbox on the General tab of the settings window (sets EnableWarnings parameter in ProcessHacker.exe.settings.xml or settings.xml) is the global controls the confirmation request dialog for any operations where it is displayed by the OS.
By default, this checkbox is checked and parameter EnableWarnings in to Process Hacker configuration file is set to 1. This means that the final decision is made by the person that allows to cancel the erroneous command of management.
If you clear this checkbox or manually set parameter EnableWarnings in to Process Hacker configuration file to 0, than any operations that require confirmation will be performed without prompting, which can lead to errors in management and data loss, or non-recoverable OS damage.