Surface-active ionic liquids (SAILs) are poised as significant contenders in sustained and targeted drug delivery due to their membrane-like structures and their ability to transport drug molecules regardless of their polarity. In order to design a simple system that an encapsulate the anticancer drug and release it in a sustained manner, herein we designed vesicular nano-aggregates through synergistically interacting chemotherapeutic drug 5-Fluoro Uracil (5-FU) with the biocompatible SAILs, Choline Oleate ([Ch][Ol]) and Tetramethyl guanidine Oleate ([TMG][Ol]). The intention for designing the system is to offers less complexity and improved drug loading efficiency and targeted and sustained release. The molecular interactions have been proven by computational approach and the size of the nanoaggregates was determined using techniques such as Dynamic Light Scattering (DLS), Förster Resonance Energy Transfer (FRET) and Small-Angle Neutron Scattering (SANS). SANS fitting data and TEM images confirmed the transition of prolate ellipsoid micelles at [5-FU] = 0 mM to uni-lamellar ([5-FU] = 1 mM) and multi-lamellar vesicles ([5-FU] = 2 mM). These vesicular nano-aggregates are studied for their stability against temperature, pH-response and ionic strength of solution, revealing stability up to 60 °C, robust at physiological pH 7.4 and remain stable to exposure to Na+ and Ca2+ ions at concentrations up to 180 mM and 50 mM, respectively. The vesicular nano-aggregates ([Ch][Ol]/5-FU and [TMG][Ol]/5-FU) when exposed to physiological pH (i.e., 7.4) released 64.8 % and 61.2 % drug release whereas when the same systems were exposed to cancerous pH (5.2 and 6.7) released 95.9 % and 84.5% (pH 5.2 and 6.7) and 94.8 % and 81.2 % (pH 5.2 and 6.7) for the [Ch][Ol]/5-FU and [TMG][Ol]/5-FU systems, respectively. Results for the studied system encompasses them as a promising candidate for drug release at specific sites. The anticipated research might pave the way for the development of a biocompatible and stimuli-responsive drug carrier that would allow for the localized delivery of an anticancer drug.