diff --git a/pyproject.toml b/pyproject.toml
index 5577c99..b8745c6 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -88,7 +88,6 @@ lint.ignore = [
     "D101",  # Ignore missing docstring in public classes
     "F401",
     # FIXME: those are ignored for now, should be fixed eventually
-    "ERA001", # Found commented-out code
     "T201",  # `print` found"
     "SIM105",  # Use `contextlib.suppress`
     "S110",  # `try`-`except`-`pass` detected, consider logging the exception
diff --git a/src/petab_gui/controllers/simulation_controller.py b/src/petab_gui/controllers/simulation_controller.py
index 3ef9a4d..90794c6 100644
--- a/src/petab_gui/controllers/simulation_controller.py
+++ b/src/petab_gui/controllers/simulation_controller.py
@@ -103,7 +103,6 @@ def simulate(self):
                     model=petab_problem.model,
                 )
 
-        # import petabsimualtor
         import basico
         from basico.petab import PetabSimulator
 
diff --git a/src/petab_gui/views/simple_plot_view.py b/src/petab_gui/views/simple_plot_view.py
index 0255600..55beddd 100644
--- a/src/petab_gui/views/simple_plot_view.py
+++ b/src/petab_gui/views/simple_plot_view.py
@@ -421,7 +421,6 @@ def plot_residuals(self):
             simulations_df,
             ax=axes_fit,
         )
-        # fig_fit.tight_layout()
         create_plot_tab(fig_fit, self, "Goodness of Fit")
 
     def disable_plotting(self, disable: bool):