Molecular dynamics simulations of low-energy (5–100 eV) Cl+ and Cl2+ bombardment on (100) Si surfaces are performed to investigate the impact of plasma dissociation and very low-energy ions (5–10 eV) in chlorine pulsed plasmas used for silicon etch applications. Ion bombardment leads to an initial rapid chlorination of the Si surface followed by the formation of a stable SiClx mixed layer and a constant etch yield at steady state. The SiClx layer thickness increases with ion energy (from 0.7 ± 0.2 nm at 5 eV to 4 ± 0.5 nm at 100 eV) but decreases for Cl2+ bombardment (compared to Cl+), due to the fragmentation of Cl2+ molecular ions into atomic Cl species with reduced energies [one X eV Cl + <−> two 2X eV Cl2+]. The Si etch yield is larger for Cl2+ than Cl+ bombardment at high-energy (Ei > 25 eV) but larger for Cl+ than Cl2+ bombardment at low-energy (Ei < 25 eV) due to threshold effects. And the higher the ion energy, the less saturated the etch products. Results suggest that weakly dissociated chlorine plasmas (containing more Cl2+ than Cl+ ions) should lead to thinner SiClx mixed layers and lower Si etch yields if ion energies remains below 25 eV, which confirms the potential of pulsed plasmas to address etching challenges of ultrathin films transistors, in which slow etch rates and very controlled processes are required.