When SPIRV-Tools is enabled, tests that specify the target environment vulkan1.3 in the validation step are failing. Specifically, the tests are:
CodeGen/SPIRV/hlsl-intrinsics/SV_GroupIndex.ll (link)
CodeGen/SPIRV/hlsl-intrinsics/smoothstep.ll (link)
This is happening because SPIRV-Tools seems to have grown some capability checks for 1.3. The target environments were originally added by suggestion in order to give more robust testing. #132288 (comment).
Proposed solution is to remove the --target-env specifications from these tests.