In recent years, in the field of bioanalysis, the use of saliva as a biological fluid for the determination of biomarkers has been proposed. Saliva analysis stands out for its simplicity and non-invasive sampling. This paper proposes a method for the dual determination of ammonium and hydrogen sulfur in saliva using two colorimetric chemosensors. The ammonia reacts with 1,2-Naftoquinone 4 sulphonic acid (NQS) entrapped in polydimethylsiloxane (PDMS) and the hydrogen sulfide with AgNPs retained in a nylon membrane. The color changed from orange to brown in the case of ammonia chemosensors and from yellow to brown in the H2S. The experimental conditions to be tested have been established. Both analytes have been determined from their gaseous form; these are ammonia from ammonium and hydrogen sulfur from hydrogen sulfur. Good figures of merit have been obtained by using both measuring strategies (reflectance diffuse and digitalized images). The acquired results show that both sensors can be used and provide good selectivity and sensitivity for the determination of these biomarkers in saliva. Both measurement strategies have provided satisfactory results for the real saliva samples (n = 15). Recoveries on spiked samples were between 70 and 100%. This methodology can lead to possible in situ diagnosis and monitoring of certain diseases and pathologies related with NH4+ and/or H2S, in a fast, simple, cheap and non-invasive way.