It sounds like this is just Windows not mapping the touch inputs to the correct display.
Search for the word 'Calibrate' from the Start Menu and select the result for 'Calibrate the screen for pen or touch input'. From the window that appears select the 'Setup' button from the 'Configure' section and follow the wizard to identify which screens are touch-enabled.
Once complete, select the appropriate monitor in the 'Display' drop-down box under the 'Display Options' section and select 'Calibrate' and then follow the wizard (do this for each touch-enabled display).
Does that help?
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