diff --git a/.ci/manywheel/build_cuda.sh b/.ci/manywheel/build_cuda.sh
index 6ed38f8b25c6..2a822295e036 100644
--- a/.ci/manywheel/build_cuda.sh
+++ b/.ci/manywheel/build_cuda.sh
@@ -187,19 +187,22 @@ if [[ $CUDA_VERSION == 12* || $CUDA_VERSION == 13* ]]; then
             export USE_CUFILE=0
         else
             DEPS_LIST+=(
-                "/usr/local/cuda/lib64/libnvToolsExt.so.1"
                 "/usr/local/cuda/lib64/libcublas.so.12"
                 "/usr/local/cuda/lib64/libcublasLt.so.12"
                 "/usr/local/cuda/lib64/libcudart.so.12"
                 "/usr/local/cuda/lib64/libnvrtc.so.12"
                 "/usr/local/cuda/extras/CUPTI/lib64/libcupti.so.12")
             DEPS_SONAME+=(
-                "libnvToolsExt.so.1"
                 "libcublas.so.12"
                 "libcublasLt.so.12"
                 "libcudart.so.12"
                 "libnvrtc.so.12"
                 "libcupti.so.12")
+
+            if [[ $CUDA_VERSION != 12.9* ]]; then
+                DEPS_LIST+=("/usr/local/cuda/lib64/libnvToolsExt.so.1")
+                DEPS_SONAME+=("libnvToolsExt.so.1")
+            fi
         fi
     else
         echo "Using nvidia libs from pypi."