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That should work just fine. I know Steve Tyree used to use a cascading system and he would try to integrate different "biotopes" into each tank. You could do the same with your idea and it would be quite unique and make for an interesting, artistic, aquarium setup. Be sure an update us when you build your system.I will have the drain on the cube up high so it drains into the shallow and have the return pump hooked to the cube.