We prove that a geometrically integral smooth projective 3‐fold with nef anti‐canonical class and negative Kodaira dimension over a finite field of characteristic and cardinality has a rational point. Additionally, under the same assumptions on and , we show that a smooth projective 3‐fold with trivial canonical class and non‐zero first Betti number has a rational point. Our techniques rely on the Minimal Model Program to establish several structure results for generalized log Calabi–Yau 3‐fold pairs over perfect fields.