Physical damage and emission increases that may occur in the engine due to uncontrolled temperature increases are prevented by cooling systems. In this study, the water jacket (WJ) of the F-Type F8Q706 engine was examined for different Reynolds numbers and geometries. With a combined examination approach, engine tests, 1D engine model, 3D in-cylinder combustion (ICC) model, and 3D WJ CFD studies are presented together, for the first time. Accordingly, a 3D WJ CFD model was developed using in-cylinder parameters calculated from 1D and 3D ICC which were verified by tests. Engine powers in 1D and 3D models, heat transfer, liner temperature, and heat flux in WJ models were compared. The engine powers at 2500 rpm with wide-open throttle are as follows: 1D (33.610 kW), 3D ICC (32.075 kW), engine catalog test (30.890 kW), and a literature test (29 kW). In the WJ model, instead of the Reynolds number 22,128.97, values of 18,440.81–15,367.34–12,806.11–1067.76–8893.14–7410.95–6175.79 were used. In this case, heat transfer decreased by 11.224%–20.844%–29.940%–38.168%–45.723%–52.874%–59.340%. Liner temperature increased by 3.962%–7.505%–10.879%–13.958%–16.800%–19.470%–21.822%. As the Reynolds number decreased, heat transfer decreased, and liner temperature increased. In the WJ, uncontrolled temperature increases were seen in areas farthest from the water inflow. Unlike studies using nanofluids, a new WJ geometry with 169 fins was developed for cooling performance. Nanoparticles cause damage to elastomeric system elements, clogging, and corrosion in lines. This geometry increased heat transfer by 42.01% and reduced liner surface temperatures by 48.28% for 22,128.966 Re. Repeated analyses showed that the fins increased heat transfer.