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You're right, that doesn't seem to be an issue for other apps. The weird part is that I can't reproduce it with the F@H client either. I setup my monitors the exact same as yours, including the splits, I installed the F@H beta client, and used the same script and trigger functions as you. I'm stumped!
In the Settings > Advanced Settings window, if you enable the "Window: Use Alternate Method To Move Windows (for testing ONLY)" does that help at all?