Pop dialog box hidden behind vantage window

I have been running a macro script for the last few years to complete Jobs.
The script includes the logic that if the backflush material question popup
boxes is in focus answer yes and continue. Recently this dialog box is
moving behind the main Job completion window causing the script to fail. The
only system changes have been OS (Win98 / NT ) security patches applied.
Vantage Tech supports says that perhaps an OCR was updated. Has anybody else
encounter this?

Thanks

Dan Shallbetter
States Electric
Vantage 5.0.0