We investigate the fine-structure [CII] line at 158 µm as a molecular gas tracer by analyzing the relationship between molecular gas mass (M mol ) and [CII] line luminosity (L [CII] ) in 11,125 z 6 starforming, main sequence galaxies from the simba simulations, with line emission modeled by Sígame. Though most (∼ 50−100 %) of the gas mass in our simulations is ionized, the bulk (> 50 %) of the [CII] emission comes from the molecular phase. We find a sub-linear (slope 0.78 ± 0.01) log L [CII] − log M mol relation, in contrast with the linear relation derived from observational samples of more massive, metalrich galaxies at z < ∼ 6. We derive a median [CII]-to-M mol conversion factor of α [CII] 18 M /L . This is lower than the average value of 30 M /L derived from observations, which we attribute to lower gas-phase metallicities in our simulations. Thus, a lower, luminosity-dependent, conversion factor must be applied when inferring molecular gas masses from [CII] observations of low-mass galaxies. For our simulations, [CII] is a better tracer of the molecular gas than CO J = 1 − 0, especially at the lowest metallicities, where much of the gas is 'CO-dark'. We find that L [CII] is more tightly correlated with M mol than with star-formation rate (SFR), and both the log L [CII] − log M mol and log L [CII] − log SFR relations arise from the Kennicutt-Schmidt relation. Our findings suggest that L [CII] is a promising tracer of the molecular gas at the earliest cosmic epochs.