I can see the appeal of a clean, logical hierarchy – it keeps everything tidy and easy to navigate. But remember, the department template exists for a reason: it saves people time and keeps projects compatible. Why not build a clean structure that fits inside the standard template? Think of it as writing a well‑organized essay that still follows the required format. Keep the core logical flow you want, but map it onto the existing hierarchy. That way you stay principled without getting tangled in bureaucracy.