I'd recommend building the stock circuit first to get it operating properly and hitting all its voltage marks before doing any modifications. When you deviate from the design and what's published in the manual, our ability to help you debug the kit is diminished, and it's very likely that we will end up asking you to put things back to stock as the first step in debugging.
If you are wanting a clean look with one knob instead of three and one set of RCA jacks in and one set out, then you'd need to start with a custom chassis plate.
Do also keep in mind that the Alps pots are not intended to have wires soldered to the pins, so if you have an Alps pot in your Moreplay and you attached the wires directly to the pot, the pins can snap off from the pressure. If one of the ground connections happens to snap off, then you'll pass DC through the output jacks, and that can have some rather deleterious effects.