diff --git a/cibuildwheel/platforms/pyodide.py b/cibuildwheel/platforms/pyodide.py
index 15612a85a..e0560b4a0 100644
--- a/cibuildwheel/platforms/pyodide.py
+++ b/cibuildwheel/platforms/pyodide.py
@@ -94,21 +94,28 @@ def ensure_node(major_version: str) -> Path:
     return path
 
 
-def install_emscripten(tmp: Path, version: str) -> Path:
-    url = f"https://github.com/emscripten-core/emsdk/archive/refs/tags/{version}.zip"
-    installation_path = CIBW_CACHE_PATH / f"emsdk-{version}"
-    emsdk_path = installation_path / f"emsdk-{version}/emsdk"
-    emcc_path = installation_path / f"emsdk-{version}/upstream/emscripten/emcc"
-    with FileLock(f"{installation_path}.lock"):
-        if installation_path.exists():
+def install_emscripten(
+    env: dict[str, str], version: str, xbuildenv_cache_path: Path, pyodide_version: str
+) -> Path:
+    """Install Emscripten via pyodide-build, which also applies Pyodide-specific patches."""
+    emcc_path = (
+        xbuildenv_cache_path / pyodide_version / "emsdk" / "upstream" / "emscripten" / "emcc"
+    )
+    with FileLock(CIBW_CACHE_PATH / "emscripten.lock"):
+        if emcc_path.exists():
             return emcc_path
-        emsdk_zip = tmp / "emsdk.zip"
-        download(url, emsdk_zip)
-        installation_path.mkdir()
-        extract_zip(emsdk_zip, installation_path)
-        call(emsdk_path, "install", version)
-        call(emsdk_path, "activate", version)
-
+        call(
+            "pyodide",
+            "xbuildenv",
+            "install-emscripten",
+            "--version",
+            version,
+            "--path",
+            str(xbuildenv_cache_path),
+            env=env,
+            cwd=CIBW_CACHE_PATH,
+        )
+    assert emcc_path.exists()
     return emcc_path
 
 
@@ -180,12 +187,8 @@ def validate_pyodide_build_version(
         raise errors.FatalError(msg)
 
 
-def install_xbuildenv(env: dict[str, str], pyodide_build_version: str, pyodide_version: str) -> str:
+def install_xbuildenv(env: dict[str, str], xbuildenv_cache_path: Path, pyodide_version: str) -> str:
     """Install a particular Pyodide xbuildenv version and set a path to the Pyodide root."""
-    # Since pyodide-build was unvendored from Pyodide v0.27.0, the versions of
-    # pyodide-build are uncoupled from the versions of Pyodide. So, we specify
-    # both the pyodide-build version and the Pyodide version in the temp path.
-    xbuildenv_cache_path = CIBW_CACHE_PATH / f"pyodide-build-{pyodide_build_version}"
     pyodide_root = xbuildenv_cache_path / pyodide_version / "xbuildenv" / "pyodide-root"
 
     with FileLock(CIBW_CACHE_PATH / "xbuildenv.lock"):
@@ -303,15 +306,19 @@ def setup_python(
         pyodide_build_version=pyodide_build_version,
     )
 
+    xbuildenv_cache_path = CIBW_CACHE_PATH / f"pyodide-build-{pyodide_build_version}"
+
+    log.step(f"Installing Pyodide xbuildenv version: {pyodide_version} ...")
+    env["PYODIDE_ROOT"] = install_xbuildenv(env, xbuildenv_cache_path, pyodide_version)
+
     emscripten_version = xbuildenv_info["emscripten"]
-    log.step(f"Installing Emscripten version: {emscripten_version} ...")
-    emcc_path = install_emscripten(tmp, emscripten_version)
+    log.step(
+        f"Installing Emscripten {emscripten_version} and applying Pyodide-specific patches ..."
+    )
+    emcc_path = install_emscripten(env, emscripten_version, xbuildenv_cache_path, pyodide_version)
 
     env["PATH"] = os.pathsep.join([str(emcc_path.parent), env["PATH"]])
 
-    log.step(f"Installing Pyodide xbuildenv version: {pyodide_version} ...")
-    env["PYODIDE_ROOT"] = install_xbuildenv(env, pyodide_build_version, pyodide_version)
-
     return env