The stability of acyl-CoAs in the various solvents was assessed by measuring the change in response at 6 and 24 hours, expressed as a percentage relative to the response observed at 0 hour. Both MeOH:Water (1:5, v/v) and MeOH:Water:IPA (1:1:1, v/v/v) showed acceptable stability over time for the acyl-CoAs. The response with the injection solvent MeOH:50 mM ammonium acetate (1:1,v/v) decreased at 6 and 24 hours, except for C2:0-CoA, which had a higher response at these time points. MeOH:Water (1:1,v/v) and methanol (100%) showed increase in response at 24 hours as compared to 6 hours especially for C2:0-CoA and C8:0-CoA. Methanol (100%) also shows a high variation in response for C2:0-CoA. The exact reason behind this observation is not clearly understood, however, solubility could be one of the contributing factors. For our method, we chose methanol:water:isopropanol (1:1:1,v/v/v) as the injection solvent as it has acceptable stability and the inclusion of slightly less polar solvent (isopropanol) in the injection solvent can increase the solubility of long-chain acyl-CoA.