Iwao, T.; Kimura, Y.; Iida, T.

Understanding structural similarities across dynamical systems at different scales remains a central problem in nonlinear science \cite{prigogine1977,nicolis1977}. Here we propose a modeling framework for cross-scale morphogenetic dynamics, termed Generalized Morphogenesis Theory (GMT), based on a flow-inertia formulation: \begin{equation} \mu(S) \frac{dS}{dt} = F(E, S), \end{equation} where $S$ denotes system state, $E$ environmental input, $F(E,S)$ a driving function, and $\mu(S)$ an inertia function representing resistance to change. This formulation provides a structural representation that encompasses several classical dynamical models---including Newtonian relaxation, logistic growth, and reaction-diffusion systems \cite{strogatz1994}---under appropriate parameterizations. Non-dimensionalization reveals a small set of control parameters governing regime transitions. Empirical validation is performed across two independent scales. At the organism scale, crop growth time-series datasets from multiple species exhibit consistent multiplicative dynamics $F(E,S) = f(E) \cdot S$, statistically preferred over additive alternatives in 5 of 6 independently tested systems ($\Delta$AIC ranging from +2 to +891; $R^2$ up to 0.98). Independently estimated inertia time constants agree in two plant systems (cucumber: $\tau=3.7$ days, CV=3.3\%; maize: $\tau=36.8$ days, CV=17.3\%), with the 10-fold ratio consistent with structural complexity differences. At the molecular scale, publicly available perturbation transcriptomics datasets (Perturb-seq) show directional response structures consistent with the proposed flow-inertia decomposition (93\% causal direction agreement across three independent datasets; $p < 10^{-25}$). Across domains, recurrent dynamical motifs are organized into 12 canonical design patterns associated with stability classes and bifurcation conditions. These results suggest that the flow-inertia formulation functions as a domain-independent structural modeling principle for dissipative morphogenesis.