diff --git a/ruff.toml b/ruff.toml
index 2c1dddc2..bf6c4dbf 100644
--- a/ruff.toml
+++ b/ruff.toml
@@ -1,19 +1,16 @@
+line-length = 88
 target-version = "py39"
-include = [
-    "autotest/**/*.py",
-    "scripts/**/*.py",
-    "etc/**/*.py",
-    ".doc/**/*.py",
-]
-extend-include = [
-    ".doc/**/*.ipynb"
-]
 
 [lint]
-select = ["F", "E", "I001"]
+select = [
+    "D409", # pydocstyle - section-underline-matches-section-length
+    "E",    # pycodestyle error
+    "F",    # Pyflakes
+    "I001", # isort - unsorted-imports
+]
 ignore = [
     "E501", # line too long TODO FIXME
     "E722", # do not use bare `except`
     "E741", # ambiguous variable name
     "F841", # local variable assigned but never used
-]
\ No newline at end of file
+]
diff --git a/scripts/ex-gwf-curvilinear-90.py b/scripts/ex-gwf-curvilinear-90.py
index b9f06e2a..4d47fb5c 100644
--- a/scripts/ex-gwf-curvilinear-90.py
+++ b/scripts/ex-gwf-curvilinear-90.py
@@ -978,7 +978,7 @@ def iter_row_col(self):
         """Generator that iterates through each rows' columns.
 
         Yields
-        -------
+        ------
         (int, int)
             Row index, column index
         """
@@ -995,7 +995,7 @@ def iter_row_cellid(self, row):
             Row index.
 
         Yields
-        -------
+        ------
         int
             cellid index
         """
@@ -1012,7 +1012,7 @@ def iter_column_cellid(self, col):
             Column index.
 
         Yields
-        -------
+        ------
         int
             cellid index
         """
@@ -1141,7 +1141,7 @@ class DisvGridMerger:
         name, and value is the merged grid's cellid.
 
     Notes
-    -------
+    -----
     The following is always true:
 
     ``cell2name[cell] ==  name2vert[cell2name[cell]]``
@@ -2066,7 +2066,7 @@ def iter_rad_col(self):
         """Generator that iterates through the radial band columns, then bands.
 
         Yields
-        -------
+        ------
         (int, int)
             radial band index, column index
         """
@@ -2082,7 +2082,7 @@ def iter_radial_cellid(self, rad):
             Radial index.
 
         Yields
-        -------
+        ------
         int
             cellid index
         """
@@ -2102,7 +2102,7 @@ def iter_column_cellid(self, col):
             Column index.
 
         Yields
-        -------
+        ------
         int
             cellid index
         """
@@ -2120,7 +2120,7 @@ def iter_columns(self, rad):
             Radial index.
 
         Yields
-        -------
+        ------
         int
             column index
         """
diff --git a/scripts/ex-gwf-curvilinear.py b/scripts/ex-gwf-curvilinear.py
index 4e185394..e06a6d14 100644
--- a/scripts/ex-gwf-curvilinear.py
+++ b/scripts/ex-gwf-curvilinear.py
@@ -978,7 +978,7 @@ def iter_row_col(self):
         """Generator that iterates through each rows' columns.
 
         Yields
-        -------
+        ------
         (int, int)
             Row index, column index
         """
@@ -995,7 +995,7 @@ def iter_row_cellid(self, row):
             Row index.
 
         Yields
-        -------
+        ------
         int
             cellid index
         """
@@ -1012,7 +1012,7 @@ def iter_column_cellid(self, col):
             Column index.
 
         Yields
-        -------
+        ------
         int
             cellid index
         """
@@ -1141,7 +1141,7 @@ class DisvGridMerger:
         name, and value is the merged grid's cellid.
 
     Notes
-    -------
+    -----
     The following is always true:
 
     ``cell2name[cell] ==  name2vert[cell2name[cell]]``
@@ -2066,7 +2066,7 @@ def iter_rad_col(self):
         """Generator that iterates through the radial band columns, then bands.
 
         Yields
-        -------
+        ------
         (int, int)
             radial band index, column index
         """
@@ -2082,7 +2082,7 @@ def iter_radial_cellid(self, rad):
             Radial index.
 
         Yields
-        -------
+        ------
         int
             cellid index
         """
@@ -2102,7 +2102,7 @@ def iter_column_cellid(self, col):
             Column index.
 
         Yields
-        -------
+        ------
         int
             cellid index
         """
@@ -2120,7 +2120,7 @@ def iter_columns(self, rad):
             Radial index.
 
         Yields
-        -------
+        ------
         int
             column index
         """