diff --git a/pysatNASA/instruments/maven_insitu_kp.py b/pysatNASA/instruments/maven_insitu_kp.py
index cace6a75..660a3ad3 100644
--- a/pysatNASA/instruments/maven_insitu_kp.py
+++ b/pysatNASA/instruments/maven_insitu_kp.py
@@ -61,7 +61,9 @@
 
 
 # Use default clean
-clean = mm_nasa.clean
+clean = functools.partial(mm_nasa.clean,
+                          skip_names=['Rotation_matrix_IAU_MARS_MAVEN_MSO',
+                                      'Rotation_matrix_SPACECRAFT_MAVEN_MSO'])
 
 
 # ----------------------------------------------------------------------------
diff --git a/pysatNASA/instruments/maven_sep.py b/pysatNASA/instruments/maven_sep.py
index 7454961c..b1fe80b2 100644
--- a/pysatNASA/instruments/maven_sep.py
+++ b/pysatNASA/instruments/maven_sep.py
@@ -23,9 +23,10 @@
 ::
     import pysat
 
-    insitu = pysat.Instrument(platform='maven', name='sep', inst_id = 's1')
+    insitu = pysat.Instrument(platform='maven', name='sep', inst_id='s1')
     insitu.download(dt.datetime(2020, 1, 1), dt.datetime(2020, 1, 31))
-    insitu.load(2020, 1, use_header = True)
+    insitu.load(2020, 1, use_header=True)
+
 """
 
 import datetime as dt
diff --git a/pysatNASA/instruments/methods/general.py b/pysatNASA/instruments/methods/general.py
index 8dee2bbe..16326279 100644
--- a/pysatNASA/instruments/methods/general.py
+++ b/pysatNASA/instruments/methods/general.py
@@ -51,32 +51,36 @@ def init(self, module, name):
     return
 
 
-def clean(self):
+def clean(self, skip_names=None):
     """Clean data to the specified level.
 
+    Parameters
+    ----------
+    skip_names : list of str
+        List of names to skip for cleaning. (default=None)
+
     Note
     ----
     Basic cleaning to replace fill values with NaN
 
     """
 
-    # Get a list of coords for the data
+    # Get a list of coords for the data. These should be skipped for cleaning.
     if self.pandas_format:
-        coords = [self.data.index.name]
+        skip_key = [self.data.index.name]
     else:
-        coords = [key for key in self.data.coords.keys()]
+        skip_key = [key for key in self.data.coords.keys()]
+
+    if skip_names:
+        # Add additional variable names to skip
+        for key in skip_names:
+            skip_key.append(key)
 
     for key in self.variables:
         # Check for symmetric dims
         # Indicates transformation matrix, xarray cannot broadcast
-        if self.pandas_format:
-            # True by default
-            unique_dims = True
-        else:
-            # Check for multiple dims
-            unique_dims = len(self[key].dims) == len(np.unique(self[key].dims))
         # Skip over the coordinates when cleaning
-        if key not in coords and unique_dims:
+        if key not in skip_key:
             fill = self.meta[key, self.meta.labels.fill_val]
 
             # Replace fill with nan