This work represents an essential step towards the understanding of the dynamics and thermodynamic characteristics of a novel family of ionic liquids, namely fluorinated ionic liquids based on the combination of 1-alkyl-3-methylimidazolium cations with perfluoroalkylsulfonates or perfluoroalkylcarboxylates anions. The so far scarce information about these fluids constitutes a limiting factor for their potential applications. In this work, we provide detailed evidence on the influence of hydrogenated and fluorinated alkyl chain lengths in the final characteristics of the fluorinated ionic liquids. Different properties, namely, melting point, decomposition temperature, density, dynamic viscosity, ionic conductivity and refractive index, were determined and the experimental results were discussed taking into account the influence of the length of the hydrogenated and fluorinated alkyl chains. Molecular dynamic simulations were also performed to study the nanoscale structure of these novel compounds.