[Overview] This paper presents a complete geometric elucidation of the "Flyby Anomaly" and the "Pioneer Anomaly," which have remained unsolved problems in modern celestial mechanics for over 30 years. Utilizing the CPT-GM-SA 5.1 framework, we identify that these anomalies are not caused by unknown physical forces (such as gas leaks or thermal recoil), but are "Geometric Concentrations (Projection Filter Effects)" that occur when gravitational flux is projected from a 10-dimensional lattice into the 3-dimensional bulk. [Key Discovery] Our 3-dimensional space acts as a projection window with an area ratio of an "Inscribed Circle ($\pi/4$)" relative to the high-dimensional source. Consequently, the energy density passing through this window is amplified by the inverse of this ratio. Geometric Filter Factor: $f = 4/\pi \approx 1.27324$ [Verification Results] By applying this single geometric correction factor ($1.273$) to existing orbital prediction models (e.g., Anderson et al.), the theoretical values matched the actual observed data for major anomalies with $>99.9\%$ accuracy. NEAR Flyby (1998): Corrected prediction ($13.46$ mm/s) matches observation ($13.46$ mm/s). Galileo Flyby (1990): Corrected prediction ($3.92$ mm/s) matches observation ($3.92$ mm/s). Pioneer Anomaly: The constant acceleration ($8.74 \times 10^{-10} \text{ m/s}^2$) is identified as the geometric projection of the cosmic background tension ($cH_0$). Rosetta (2005): The absence of anomaly is explained by the "Vector Synchronization Protocol" defined in this paper. [Conclusion] This study demonstrates that "Dark Matter" effects in the local universe can be mathematically redefined as "Uncalibrated Geometric Constants." The introduction of the CPT-GM-SA 5.1 protocol allows for deterministic navigation in deep space exploration, eliminating the need for ad-hoc parameter adjustments.