Activating fluxes (AF) can be applied in the welding process to improve the morphology, microstructure, and mechanical properties, such as hardness, tensile strength, yield strength, etc. In regard to published research on AF application in Tungsten Inert Gas (TIG) welding, there are limited studies concerning the Gas Metal Arc Welding (GMAW) process. This gap in research has prompted investigations aimed at finding out the AF’s influence during the GMAW process. The purpose of this paper is to apply three AF (SiO2, TiO2, and CaCO3) in 316L stainless steel GMAW processing and to analyze their influence on weld bead geometry, hardness and microstructure. The results showed that the highest penetration and the smallest width can be obtained using TiO2 as AF, and the highest reinforcement can be obtained by CaCO3 as AF. They also indicated that AF addition could significantly increase after-welding hardness, which might be caused by the microstructure changes. The microstructure observation revealed that the welding area without AF was mainly composed of austenite, and due to the addition of AF increased the welding temperature, which caused the martensite structure to be found in these samples. The heat treatment was introduced to reduce the hardness since the too big and uneven hardness would bring negative consequences such as brittleness. The after-HT analysis showed that HT can reduce the hardness effectively and can improve the uniformity of whole weld bead. Additionally, it was found that samples with AF were more sensitive to HT. This study concludes that AF can be applied in GMAW welding process and can influence the weld bead significantly.