Soybean [Glycine max (L.) Merr.] oil normally contains 2 to 4% stearic acid. Oil with higher levels of stearic acid is desired for use in the baking industry for both its chemical properties and human health benefits. Several lines with increased stearic acid have been identified; however, the agronomic consequences of high seed stearic acid are poorly understood. This study evaluates the effects of high stearic acid mutant alleles for two different Δ9–stearoyl‐acyl carrier protein‐desaturase genes, SACPD‐B and SACPD‐C, on agronomic performance. Fifty F2–derived lines developed in a previous study were evaluated in a germination chamber and two field environments. Lines were either homozygous for the SACPD‐C fasnc allele previously identified in FAM94‐41, homozygous for the SACPD‐B fas2nc allele from the induced ‘Holladay’ mutant TCJWB03‐806‐7‐19, homozygous for both mutant genes, or homozygous wild‐type for both genes. SACPD‐C mutant lines were agronomically indistinguishable from the wild‐type lines and yielded as well (3534 vs. 3414 kg ha−1). SACPD‐B mutant lines suffered from a decreased seedling growth rate, were 15% shorter at maturity, had a 4% seed size reduction, and yielded 6% less than the wild‐type lines. The different agronomic performance between SACPD‐C and SACPD‐B mutant lines was attributed to altered fatty acid composition in vegetative tissues of the SACPD‐B mutant lines.