diff --git a/docs/mkdocs.yml b/docs/mkdocs.yml
index 34948497..a8d78f44 100644
--- a/docs/mkdocs.yml
+++ b/docs/mkdocs.yml
@@ -29,12 +29,6 @@ theme:
   features:
     - toc.integrate
 
-nav:
-  - Welcome: "index.md"
-  - API: api/
-  - Contribute documentation: "contribute.md"
-  - About this doc: "about.md"
-
 markdown_extensions:
   - admonition
   - pymdownx.details
@@ -52,7 +46,6 @@ plugins:
       scripts:
       - scripts/gen_ref_pages.py 
   - literate-nav:
-      nav_file: api.md
   - mkdocstrings:
       handlers:
         python:
diff --git a/docs/scripts/gen_ref_pages.py b/docs/scripts/gen_ref_pages.py
index 299dc3ca..aa6f8e23 100644
--- a/docs/scripts/gen_ref_pages.py
+++ b/docs/scripts/gen_ref_pages.py
@@ -11,8 +11,8 @@
 
 for path in sorted(src.rglob("*.py")):
     module_path = path.relative_to(src).with_suffix("")
-    doc_path = path.relative_to(src).with_suffix(".md")
-    full_doc_path = Path(root, "docs/api", doc_path)
+    doc_path = "api" / path.relative_to(src).with_suffix(".md")
+    full_doc_path = Path(root, "docs", doc_path)
     parts = tuple(module_path.parts)
 
     if parts[-1] == "__init__":
@@ -28,5 +28,5 @@
 
         mkdocs_gen_files.set_edit_path(full_doc_path, path.relative_to(root))
 
-with mkdocs_gen_files.open(root / "docs/api/api.md", "w") as nav_file:
+with mkdocs_gen_files.open(root / "docs/api.md", "w") as nav_file:
     nav_file.writelines(nav.build_literate_nav())