This release presents TLMM v6.5 (Two-Layer Modulation Model), a Bayesian-calibrated adaptive framework for Viability Risk Index (VRI) modeling and risk-driven topological repair in neurodegenerative disease contexts. Building on TLMM v6.4, this version introduces five major advances: 1. Sequential Bayesian VRI updating with external cohort transfer validation (ADNI → AIBL/OASIS)2. Epistemic–aleatoric uncertainty decomposition with domain-wise analysis3. Predictive Viability Horizon (PVH/CPVH) as a time-to-event framework4. Connectome-Inspired Topology Repair Automation (TRA) with uncertainty-aware repair efficacy evaluation5. Cross-scale resonance stability boundaries with exploratory partial geometric steering The framework integrates Bayesian inference, uncertainty quantification, predictive viability estimation, topology-aware repair modeling, and exploratory steering concepts within a unified adaptive architecture. The release includes: • Full TLMM v6.5 manuscript• Figures 1–10• Reproducible demo script (tlmm_v65_demo.py)• Documentation and validation roadmap All quantitative results are illustrative and simulation-derived unless otherwise noted. Real-data validation using longitudinal cohorts remains ongoing and will be reported in future versions. TLMM v6.5 is intended as a conceptual and methodological framework for uncertainty-aware risk estimation, adaptive intervention planning, and future digital twin research. It is not a clinical diagnostic or treatment system.