diff --git a/nix/build-all.py b/nix/build-all.py
index f34dcf6978..139e1dda2a 100644
--- a/nix/build-all.py
+++ b/nix/build-all.py
@@ -1521,6 +1521,9 @@ if "IfcOpenShell-Python" in targets:
         )
         # Copy setup.py where pyodide build system expects it.
         shutil.copy(REPO_PATH / "pyodide" / "setup.py", REPO_PATH)
+        # Empty pyproject so it's contents won't affect the resulting wheelthe the
+        # otherwise the wheel will use version and dependencies from toml, not setup.py.
+        (REPO_PATH / "pyproject.toml").write_text("")
 
     elif USE_CURRENT_PYTHON_VERSION:
         python_info = sysconfig.get_paths()