diff --git a/openfe/protocols/openmm_rfe/_rfe_utils/relative.py b/openfe/protocols/openmm_rfe/_rfe_utils/relative.py
index ac6e46bb..60182a19 100644
--- a/openfe/protocols/openmm_rfe/_rfe_utils/relative.py
+++ b/openfe/protocols/openmm_rfe/_rfe_utils/relative.py
@@ -5,6 +5,7 @@
 
 # turn off formatting since this is mostly vendored code
 # fmt: off
+# ruff: noqa: F841  # TODO: address these
 
 import copy
 import itertools
diff --git a/openfe/protocols/openmm_rfe/equil_rfe_methods.py b/openfe/protocols/openmm_rfe/equil_rfe_methods.py
index 85f07cdb..30eceb53 100644
--- a/openfe/protocols/openmm_rfe/equil_rfe_methods.py
+++ b/openfe/protocols/openmm_rfe/equil_rfe_methods.py
@@ -801,7 +801,7 @@ class RelativeHybridTopologyProtocolUnit(gufe.ProtocolUnit):
             "protocol"
         ].settings
         stateA = self._inputs["stateA"]
-        stateB = self._inputs["stateB"]
+        # stateB = self._inputs["stateB"]  # TODO: do we need this?
         mapping = self._inputs["ligandmapping"]
 
         forcefield_settings: settings.OpenMMSystemGeneratorFFSettings = (