diff --git a/tests/main/__init__.py b/tests/main/__init__.py
new file mode 100644
index 00000000..e69de29b
diff --git a/tests/main/driver/test_driver.py b/tests/main/driver/test_driver.py
index c48b6510..6e3f08e8 100644
--- a/tests/main/driver/test_driver.py
+++ b/tests/main/driver/test_driver.py
@@ -1,6 +1,6 @@
 import unittest.mock
 from datetime import datetime, timedelta
-from typing import Literal, Tuple
+from typing import Literal
 
 import pytest
 
@@ -22,7 +22,7 @@ def get_driver_config(
     hours: int = 0,
     minutes: int = 0,
     seconds: int = 0,
-    layout: Tuple[int, int] = (1, 1),
+    layout: tuple[int, int] = (1, 1),
     frequency: int = 1,
     output_initial_state=False,
     start_time_type: Literal["timedelta", "datetime"] = "timedelta",
diff --git a/tests/main/driver/test_example_configs.py b/tests/main/driver/test_example_configs.py
index f8e77c83..e16ce84c 100644
--- a/tests/main/driver/test_example_configs.py
+++ b/tests/main/driver/test_example_configs.py
@@ -1,6 +1,5 @@
 import os
 from pathlib import Path
-from typing import List
 
 import pytest
 import yaml
@@ -9,7 +8,7 @@
 from tests.paths import EXAMPLE_CONFIGS_DIR, JENKINS_CONFIGS_DIR
 
 
-TESTED_CONFIGS: List[str] = [
+TESTED_CONFIGS: list[str] = [
     "baroclinic_c12.yaml",
     "baroclinic_c12_dp.yaml",
     "baroclinic_c12_explicit_physics.yaml",
@@ -20,7 +19,7 @@
     "baroclinic_c48_6ranks_serialbox_test.yaml",
     "analytic_test.yaml",
 ]
-EXCLUDED_CONFIGS: List[str] = [
+EXCLUDED_CONFIGS: list[str] = [
     # We don't test serialbox example because it loads namelist
     # filepath that are not in git
     "baroclinic_c12_from_serialbox.yaml",
@@ -33,13 +32,13 @@
 ]
 
 
-TESTED_JENKINS_CONFIGS: List[str] = [
+TESTED_JENKINS_CONFIGS: list[str] = [
     "baroclinic_c48_6ranks_dycore_only.yaml",
     "baroclinic_c192_6ranks.yaml",
     "baroclinic_c192_54ranks.yaml",
 ]
 
-EXCLUDED_JENKINS_CONFIGS: List[str] = [
+EXCLUDED_JENKINS_CONFIGS: list[str] = [
     # We don't test serialbox example because it loads namelist
     # filepath that are not in git
     "baroclinic_c48_6ranks_dycore_only_serialbox.yaml",
@@ -61,7 +60,7 @@
     ],
 )
 def test_all_configs_tested_or_excluded(
-    config_dir: Path, tested_configs: List[str], excluded_configs: List[str]
+    config_dir: Path, tested_configs: list[str], excluded_configs: list[str]
 ):
     """
     If any configs are not tested or excluded, add them to TESTED_CONFIGS or
@@ -84,7 +83,7 @@ def test_all_configs_tested_or_excluded(
         pytest.param(JENKINS_CONFIGS_DIR, TESTED_JENKINS_CONFIGS),
     ],
 )
-def test_example_config_can_initialize(path: Path, file_list: List[str]):
+def test_example_config_can_initialize(path: Path, file_list: list[str]):
     for file_name in file_list:
         with open(path / file_name, "r") as f:
             config = DriverConfig.from_dict(yaml.safe_load(f))
diff --git a/tests/main/fv3core/__init__.py b/tests/main/fv3core/__init__.py
new file mode 100644
index 00000000..e69de29b
diff --git a/tests/main/fv3core/test_dycore_call.py b/tests/main/fv3core/test_dycore_call.py
index 7cc9552f..43262c84 100644
--- a/tests/main/fv3core/test_dycore_call.py
+++ b/tests/main/fv3core/test_dycore_call.py
@@ -2,7 +2,6 @@
 from dataclasses import fields
 from datetime import timedelta
 from pathlib import Path
-from typing import Tuple
 
 import pyfv3.initialization.analytic_init as ai
 from ndsl import (
@@ -27,7 +26,7 @@
 from pyfv3.initialization.analytic_init import AnalyticCase
 
 
-def setup_dycore() -> Tuple[DynamicalCore, DycoreState, Timer]:
+def setup_dycore() -> tuple[DynamicalCore, DycoreState, Timer]:
     backend = Backend("st:numpy:cpu:IJK")
     config = DynamicalCoreConfig(
         layout=(1, 1),
diff --git a/tests/main/fv3core/test_init_from_geos.py b/tests/main/fv3core/test_init_from_geos.py
index 3947ddd9..4b24c578 100644
--- a/tests/main/fv3core/test_init_from_geos.py
+++ b/tests/main/fv3core/test_init_from_geos.py
@@ -1,6 +1,5 @@
 import f90nml
 import numpy as np
-import pytest  # noqa
 
 from ndsl.config import Backend
 from pace import NullComm
@@ -108,11 +107,6 @@ def test_geos_wrapper():
         namelist["nx_tile"] + 2 * nhalo + 1,
         namelist["nz"],
     )
-    shape_z_interface = (
-        namelist["nx_tile"] + 2 * nhalo,
-        namelist["nx_tile"] + 2 * nhalo,
-        namelist["nz"] + 1,
-    )
     shape2d = (
         namelist["nx_tile"] + 2 * nhalo,
         namelist["nx_tile"] + 2 * nhalo,
diff --git a/tests/main/physics/__init__.py b/tests/main/physics/__init__.py
new file mode 100644
index 00000000..e69de29b
diff --git a/tests/mpi/__init__.py b/tests/mpi/__init__.py
new file mode 100644
index 00000000..e69de29b
diff --git a/tests/mpi/ext_grid/__init__.py b/tests/mpi/ext_grid/__init__.py
new file mode 100644
index 00000000..e69de29b
diff --git a/tests/mpi/restart/__init__.py b/tests/mpi/restart/__init__.py
new file mode 100644
index 00000000..e69de29b
diff --git a/tests/savepoint/__init__.py b/tests/savepoint/__init__.py
new file mode 100644
index 00000000..e69de29b
diff --git a/tests/savepoint/test_checkpoints.py b/tests/savepoint/test_checkpoints.py
index 2a80abd3..316c4205 100644
--- a/tests/savepoint/test_checkpoints.py
+++ b/tests/savepoint/test_checkpoints.py
@@ -1,7 +1,6 @@
 import dataclasses
 from datetime import timedelta
 from pathlib import Path
-from typing import List, Tuple
 
 import dacite
 import f90nml
@@ -14,7 +13,6 @@
     CubedSpherePartitioner,
     GridIndexing,
     MPIComm,
-    Namelist,
     Quantity,
     QuantityFactory,
     StencilConfig,
@@ -37,7 +35,7 @@
 
 
 def get_grid(
-    data_path: Path, rank: int, layout: Tuple[int, int], backend: Backend
+    data_path: Path, rank: int, layout: tuple[int, int], backend: Backend
 ) -> Grid:
     ds_grid: xr.Dataset = xr.open_dataset(data_path / "Grid-Info.nc").isel(savepoint=0)
     grid = TranslateGrid(
@@ -58,7 +56,7 @@ def __init__(
         self._ds = ds
         self._translate = translate
 
-    def new_state(self) -> Tuple[DycoreState, GridData]:
+    def new_state(self) -> tuple[DycoreState, GridData]:
         input_data = dataset_to_dict(self._ds.copy())
         state, grid_data = self._translate.prepare_data(input_data)
         return state, grid_data
@@ -68,7 +66,7 @@ def test_fv_dynamics(
     backend: str, data_path: Path, calibrate_thresholds: bool, threshold_path: Path
 ):
     print("start test call")
-    namelist = Namelist.from_f90nml(f90nml.read(data_path / "input.nml"))
+    namelist = f90nml.read(data_path / "input.nml")
     threshold_filename = threshold_path / "fv_dynamics.yaml"
     communicator = CubedSphereCommunicator(
         comm=MPIComm(),
@@ -202,7 +200,7 @@ def set_manual_thresholds(thresholds: SavepointThresholds):
             entry[name] = Threshold(relative=0.0, absolute=0.0)
 
 
-def merge_thresholds(all_thresholds: List[SavepointThresholds]):
+def merge_thresholds(all_thresholds: list[SavepointThresholds]):
     thresholds = all_thresholds[0]
     for other_thresholds in all_thresholds[1:]:
         for savepoint_name in thresholds.savepoints:
diff --git a/tests/savepoint/translate/translate_driver.py b/tests/savepoint/translate/translate_driver.py
index 59016e91..4c85368e 100644
--- a/tests/savepoint/translate/translate_driver.py
+++ b/tests/savepoint/translate/translate_driver.py
@@ -1,4 +1,6 @@
-from ndsl import Namelist, QuantityFactory, SubtileGridSizer
+from f90nml import Namelist
+
+from ndsl import QuantityFactory, SubtileGridSizer
 from ndsl.constants import N_HALO_DEFAULT
 from pace import Driver, DriverConfig, TendencyState
 from pyfv3 import DynamicalCoreConfig