Ionic liquids are green solvents that have wide applications in material synthesis, catalysis, and separation. A model switchable ionic liquid (SWIL) consisting of 1,8-diazabicycloundec-7-ene (DBU) and 1-hexanol with carbon dioxide (CO 2 ) as the trigger gas was chosen to synthesize nanocrystalline green rust. Under anoxic conditions, by adding iron (II) acetate (Fe(C 2 H 3 O 2 ) 2 ) and methanol to the degassed SWIL, a nanoparticulate green rust with carbonate (nano GR) was synthesized. More importantly, the molecular structural change of the ionic liquid resulting in green rust crystallines has been first characterized using in situ liquid using time-of-flight secondary ion mass spectrometry (ToF-SIMS) coupled with the System for Analysis at the Liquid Vacuum Interface (SALVI), a vacuum compatible microfluidic reactor in this work. Dimers and ionic clusters consisting ferric and ferrous ions have been identified in liquid ToF-SIMS spectra. We used spectral principal component analysis to confirm that these ion pairs including dimers and cluster ions are different from non-ionic liquids. Our results show that liquid ToF-SIMS can be a useful tool to study complex liquids at the molecular level providing insights into predicative synthesis of nanomaterials using environmentally friendly green solvents and giving unique visualization of the evolving material interface due to nucleation.