Abstract. Formaldehyde (FM) and glyoxal (GL) are important atmospheric species of indoor and outdoor environments. They are either directly emitted in the atmosphere, or they are formed through the oxidation of organic compounds by indoor and/or outdoor atmospheric oxidants. Despite their importance, the real-time monitoring of these compounds with soft ionization mass spectrometric techniques, e.g., proton transfer mass spectrometry (PTR-MS), remains problematic and is accompanied by low sensitivity. In this study, we evaluate the performance of a multi-ion selected ion flow tube mass spectrometer (SIFT-MS) to monitor in real-time atmospherically relevant concentrations of FM and GL under controlled experimental conditions. The SIFT-MS used is operated under standard conditions (SCs), as proposed by the supplier, and custom conditions (CCs) to achieve higher sensitivity. In the case of FM, SIFT-MS sensitivity is marginally impacted by relative humidity (RH), and the detection limits achieved are below 200 ppt (parts per trillion). Contrariwise, in the case of GL, a sharp decrease of instrument sensitivity is observed with increasing RH when the H3O+ ion is used. Nevertheless, the detection of GL, using NO+ precursor ion, is moderately impacted by moisture with an actual positive sensitivity response. Therefore, we recommend the use of the NO+ precursor for the reliable detection and quantitation of GL. This work evidences that SIFT-MS can be considered as an efficient tool to monitor the concentration of FM and GL in laboratory experiments, and potentially in indoor or outdoor environments, capable of identifying their primary emission or secondary formation through (photo)oxidation processes. Furthermore, SIFT-MS technology still allows great possibilities for sensitivity improvement and high potential for monitoring low proton transfer affinity compounds.