We should be able to add a "Move Window to Next Monitor (Ignore Splits)" function for the next beta. In the meantime, if you uncheck the "Window Management" box in the Monitor Config window, then it will still constrain the taskbar to the splits, but window functions will ignore the splits.
Just wanted to follow-up and let you know that we've implemented this feature request in the latest beta version of DisplayFusion. You can download the latest beta version from the link below:
http://www.displayfusion.com/Download/Beta/
Thanks!