The extraction of trace elements from soil with DTPA is a widely used protocol across laboratories. There is a possible “hidden” discrepancy regarding the results obtained from the extractions, i.e., ambient laboratory temperature and soil properties. In this study, the possible influence of these factors on the extractability of the available forms of Cu, Fe, Pb, Mn, Ni, and Zn, measured with DTPA were studied. Α series of extractions was carried out on a soil sample under normal laboratory temperatures, which fluctuated throughout the year, from 15 to 33.9 °C. In other 144 soil samples, the prevailing physico-chemical properties of soil were evaluated (pH, organic C, clay, CaCO3) that affected the percentage of DTPA extractability relative to the pseudo-total determined content. A strong positive correlation of all metals versus increased ambient temperature was found. Cu had an R2 of 0.897, Fe 0.970, Mn 0.957, Ni 0.938, Pb 0.876, and, Zn 0.922, all highly significant. Extracted Mn exhibited a 6.5-fold increase at the highest temperature of 33.9 οC compared to the lowest. Similar increasing trend was observed for Fe, and Ni, and smaller for Cu, Zn, and Pb. Inherent soil properties affected the percentage of extractability relative to the total content: extractability of Cu, Fe, Mn, and Ni was affected negatively by pH, and the extractability of the studied metals with CaCO3 content. Other soil properties (organic C and clay/sand content) also had an effect, not as pronounced as that of pH and CaCO3. This signifies the necessity of employing standard conditions for routine extractions such as DTPA so that data may be comparable. Also these identified discrepancies may have consequences in the extractability and availability of soil micronutrients and toxic elements regarding climate change. This study aspires to play the role of an initial step towards more robust investigations that would suggest ways of correcting temperature and soil characteristics discrepancies across laboratories.