Microalgae are able to produce many valuable biomolecules, such as polysaccharides, that presents a large diversity of biochemical structures and functions as antioxidant, antifungal, anticancer, among others. Static magnetic fields (SMF) influence the metabolism of microorganisms and has been shown as an alternative to increase microalgae biomass, yield and compounds production. Especially, some studies have highlighted that SMF application could enhance carbohydrate content. This study aimed to evaluate different conditions of SMF on Spirulina and Chlorella in indoor and outdoor conditions, in order to confirm the influence of SMF on polysaccharides production, evaluating which polysaccharidic fraction could be enhanced by SMF and highlighting a possible modification in EPS composition. Starch from Chlorella and exopolysaccharides (EPS) from Spirulina were quantified and characterized. SMF increased the starch content in Chorella fusca biomass. EPS productions from A. platensis and Spirulina sp. were not significantly increased, and global composition appeared similar to the controls (constituted basically of 80–86% neutral sugars and 13–19% uronic acids). However, the monosaccharide composition analysis revealed a significant modification of composition, i.e., the amount of fucose, arabinose, rhamnose, galactose and glucuronic acid was increased, while the glucose content was decreased. SMF application led to significant modification of polysaccharides production and this study demonstrate that combining the outdoor conditions with SMF, the starch content and EPS composition was positively affected.