The transformed plant tissue sections through the agroinfiltration method are difficult to be observed under a fluorescent microscope. It is due to the softness of the post-transformation explant. This research was conducted to optimize the sectioning of the transformed plant using the agarose embedding technique. The optimization method was carried out in various agarose concentrations: 2%, 4%, and 6%, followed by five minutes of incubation in various temperatures: -80 oC, 4 oC, and 25 oC. The results showed that the embedding method using 6% agarose produced a transformed plant section was better than 2% and 4% agarose. Meanwhile, the incubation method at 25 oC was more suitable for the transformed plant tissue than 4 oC and -80 oC. Green Fluorescent Protein (GFP) could be determined using these methods under a fluorescent microscope. Thus, the optimum method for making sections of transformed plants by embedding was using 6% agarose then incubating at 25 oC for 5 minutes.