This study implemented a discharge energy and success-rate monitoring system to replace the traditional oscillograph observation method and conducted a microbial control test for a nanosilver colloid prepared by an Electrical Discharge Machine (EDM). The advantage of this system is that the discharge conditions can be instantly and continuously observed, and the optimized discharge parameter settings can be recorded. The monitoring system can use the arcing rate to control the energy consumption of the electrodes to standardize the nanosilver colloid. The results show that the arcing rate, electrode weight loss, and absorption peak wavelength are very accurate. The nanosilver colloid prepared by EDM is free of any chemical additive, and in comparison to other preparation methods, it is more applicable to biotechnology, even to the human body. The microbial control test for the nanosilver colloid included a Bathroom sample, Penicillium, Aspergillus niger, and Aspergillus flavus. In test solution NO.1 (prepared by micro-EDM), the effects of all four samples were inhibited at 14mm in a metal ring experiment, and in the cotton pad experiment, Penicillium was inhibited at 17 mm. In the metal ring experiment, test solution NO. 2 (prepared by EDM) had an effect at 20 mm on the bathroom samples, but at only 15 mm on flavus. In the cotton pad experiment, the inhibited effect was more effective in Penicillium and Aspergillus Niger; both inhibited effects occurred at 25 mm. Test solutions NO.3 (prepared by micro-EDM) and NO.4 (32 ppm Ag+) had a 14–15 mm effect on all samples in the metal ring experiment. In the cotton pad experiment, NO.3 had an effect on Penicillium at 19 mm while the effect on the others occurred at 14 mm, and NO.4 had an effect at 25 mm in Penicillium and Aspergillus Niger, and only at 14 mm in the bathroom and Aspergillus flavus samples.