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Innovation is widely invoked across policy, organizational, and technological discourse, yet its structural dynamics remain insufficiently theorized. Existing frameworks tend to rely on binary distinctions such as incremental versus radical or sustaining versus disruptive, which capture differences in intensity but obscure differences in structural scale, systemic position, and cascading potential. This article introduces the M3 Innovation Topology, a transdomain framework for understanding innovation as a multi-scale, dynamic phenomenon defined by scale (micro, mini, macro), locus within a system, and cascading behavior across levels. Unlike traditional levels-of-analysis models, the topology classifies innovation by structural impact rather than by where it occurs. Micro, mini, and macro innovations may originate at any level — individual, organizational, or societal — and their ultimate effects depend less on magnitude than on structural position and propagation pathways. Particular attention is given to the frequently neglected “mini” or structural middle, where workflows, governance, and coordination architectures reside and where many transformation efforts stall. Drawing on examples from biological systems, semiconductor design, healthcare, and organizational change, the article argues that small innovations introduced at high-leverage loci can produce system-wide effects, while large initiatives may dissipate when structurally misaligned. The M3 topology functions both as a diagnostic lens for mapping innovation patterns and as a generative design framework for aligning innovation across scales, offering a complementary layer to existing innovation typologies by introducing structural granularity and cascade awareness.