diff --git a/CHANGELOG.md b/CHANGELOG.md
index e1a0e0e9..7de10b56 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -7,6 +7,8 @@ This project adheres to [Semantic Versioning](https://semver.org/).
   * MAVEN mag
   * MAVEN SEP
   * MAVEN in situ
+* Bug Fixes
+  * Fix general clean routine to skip transformation matrices
 * Maintenance
   * Implemented unit tests for cleaning warnings
   * Use pip install for readthedocs
diff --git a/pysatNASA/instruments/methods/general.py b/pysatNASA/instruments/methods/general.py
index 1d075c46..8dee2bbe 100644
--- a/pysatNASA/instruments/methods/general.py
+++ b/pysatNASA/instruments/methods/general.py
@@ -67,8 +67,16 @@ def clean(self):
         coords = [key for key in self.data.coords.keys()]
 
     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:
+        if key not in coords and unique_dims:
             fill = self.meta[key, self.meta.labels.fill_val]
 
             # Replace fill with nan