diff --git a/utils/bazel/.bazelrc b/utils/bazel/.bazelrc
--- a/utils/bazel/.bazelrc
+++ b/utils/bazel/.bazelrc
@@ -22,6 +22,9 @@
 # based on compilation_mode.
 build --strip=never
 
+# Add layering check to all projects.
+build --features=layering_check
+
 ###############################################################################
 # Options to select different strategies for linking potential dependent
 # libraries. The default leaves it disabled.
diff --git a/utils/bazel/llvm-project-overlay/libc/utils/MPFRWrapper/BUILD.bazel b/utils/bazel/llvm-project-overlay/libc/utils/MPFRWrapper/BUILD.bazel
--- a/utils/bazel/llvm-project-overlay/libc/utils/MPFRWrapper/BUILD.bazel
+++ b/utils/bazel/llvm-project-overlay/libc/utils/MPFRWrapper/BUILD.bazel
@@ -10,6 +10,13 @@
 
 cc_library(
     name = "mpfr_impl",
+    # Disable layering check when using mpfr_system.
+    features = select(
+        {
+            "//conditions:default": [],
+            "//libc:mpfr_system": ["-layering_check"],
+        },
+    ),
     target_compatible_with = select({
         "//conditions:default": [],
         "//libc:mpfr_disable": ["@platforms//:incompatible"],
@@ -36,9 +43,9 @@
         "//libc:__support_fputil_fp_bits",
         "//libc:__support_fputil_platform_defs",
         "//libc:libc_root",
-        "//libc/utils/MPFRWrapper:mpfr_impl",
         "//libc/test/UnitTest:LibcUnitTest",
         "//libc/test/UnitTest:fp_test_helpers",
+        "//libc/utils/MPFRWrapper:mpfr_impl",
         "//libc/utils/testutils:libc_test_utils",
     ],
 )