LDL particle size was reduced after HF by −0.51 nm (95% CI: −0.19, −0.82 nm) and after HS by −0.43 nm (95% CI: −0.12, −0.74; P < 0.05 for both). Similarly, a more atherogenic LDL subclass distribution was seen when fructose-containing SSBs were consumed (MF, HF, and HS: P < 0.05). Fasting glucose and high-sensitivity C-reactive protein (hs-CRP) increased significantly after all interventions (by 4–9% and 60–109%, respectively; P < 0.05); leptin increased during interventions with SSBs containing glucose only (MG and HG: P < 0.05).