Heat and drought stresses reduce significantly durum wheat production. Terminal heat stress affects anthesis and grain filling resulting in a severe reduction in yield. Hence, a durum wheat panel was exposed to simulated heat stress at the time of flowering by applying plastic tunnels in the field over two seasons. Mean yield was reduced by 54 % under heat compared to control conditions and grain number per spike found to be the most critical trait for tolerance to warm conditions. Drought stress occurring at the time of flowering blocks the normal nutrient movement within the plant and results in severe reduction in grain size, and hence in yield. 100 of entries were screened for adult root types under normal and simulated drought conditions using the pasta strainer method. These same entries were also tested under field conditions in drought prone sites, to reveal that narrow root angle (deep roots) generated a 38% yield advantage. The panel was genotyped with 8,173 polymorphic SNPs markers via 35K Axiom array. Association analysis corrected by Bonferroni critical LOD and using flowering time as covariate, revealed that yield under heat stress was controlled by four QTLs located on chromosomes 1A, 5A, 5B and 6B, of which three overlap with spike fertility traits. For yield reduction in case of drought, this trait was controlled by three QTLs on 3A, 3B and 7B. Haplotype analysis confirmed that the positive allele at three of heat stress QTLs resulted in yield advantage of 15% under the heat-stressed conditions of the Senegal River. Similarly, the positive alleles for the three of QTLs for drought tolerance achieved 17% yield advantage under the extremely dry conditions of Kfardan, Lebanon. Three of the QTLs for heat tolerance were successfully validated into KASP and explained >10% of the phenotypic variation for grain yield in an independent germplasm set tested under severe heat. Similarly, three QTLs for root angle were successfully converted to KASP and explained >10 of the phenotypic variation for grain size and grain yield of an independent validation set tested under severe drought. These six QTLs can now be pyramided via MAS to obtain superior cultivars well adapted to two major abiotic stresses.