diff --git a/aiida/orm/nodes/node.py b/aiida/orm/nodes/node.py
index 06237738e2..73aed91e09 100644
--- a/aiida/orm/nodes/node.py
+++ b/aiida/orm/nodes/node.py
@@ -1090,6 +1090,11 @@ def _store_from_cache(self, cache_node, with_transaction):
             if key != Sealable.SEALED_KEY:
                 self.set_attribute(key, value)
 
+        # The erase() removes the current content of the sandbox folder.
+        # If this was not done, the content of the sandbox folder could
+        # become mangled when copying over the content of the cache
+        # source repository folder.
+        self._repository.erase()
         self.put_object_from_tree(cache_node._repository._get_base_folder().abspath)  # pylint: disable=protected-access
 
         self._store(with_transaction=with_transaction, clean=False)
diff --git a/aiida/orm/utils/repository.py b/aiida/orm/utils/repository.py
index 519c96c616..a8aa5155b2 100644
--- a/aiida/orm/utils/repository.py
+++ b/aiida/orm/utils/repository.py
@@ -262,7 +262,7 @@ def erase(self, force=False):
         if not force:
             self.validate_mutability()
 
-        self._repo_folder.erase()
+        self._get_base_folder().erase()
 
     def store(self):
         """Store the contents of the sandbox folder into the repository folder."""
diff --git a/tests/orm/node/test_node.py b/tests/orm/node/test_node.py
index ddfedf594c..228ca7082e 100644
--- a/tests/orm/node/test_node.py
+++ b/tests/orm/node/test_node.py
@@ -11,11 +11,13 @@
 """Tests for the Node ORM class."""
 
 import os
+import tempfile
 
 from aiida.backends.testbase import AiidaTestCase
 from aiida.common import exceptions, LinkType
 from aiida.orm import Data, Node, User, CalculationNode, WorkflowNode, load_node
 from aiida.orm.utils.links import LinkTriple
+from aiida.manage.caching import enable_caching
 
 
 class TestNode(AiidaTestCase):
@@ -729,3 +731,25 @@ def test_tab_completable_properties(self):
         self.assertEqual(workflow.outputs.result_b.pk, output2.pk)
         with self.assertRaises(exceptions.NotExistent):
             _ = workflow.outputs.some_label
+
+
+# Clearing the DB is needed because other parts of the tests (not using
+# the fixture infrastructure) delete the User.
+def test_store_from_cache(clear_database_before_test):  # pylint: disable=unused-argument
+    """
+    Regression test for storing a Node with (nested) repository
+    content with caching.
+    """
+    data = Data()
+    with tempfile.TemporaryDirectory() as tmpdir:
+        dir_path = os.path.join(tmpdir, 'directory')
+        os.makedirs(dir_path)
+        with open(os.path.join(dir_path, 'file'), 'w') as file:
+            file.write('content')
+        data.put_object_from_tree(tmpdir)
+
+    data.store()
+    with enable_caching():
+        clone = data.clone().store()
+    assert clone.get_cache_source() == data.uuid
+    assert data.get_hash() == clone.get_hash()
diff --git a/tests/orm/utils/test_repository.py b/tests/orm/utils/test_repository.py
index 9e600ace19..a490459edb 100644
--- a/tests/orm/utils/test_repository.py
+++ b/tests/orm/utils/test_repository.py
@@ -14,8 +14,9 @@
 import tempfile
 
 from aiida.backends.testbase import AiidaTestCase
-from aiida.orm import Node
+from aiida.orm import Node, Data
 from aiida.orm.utils.repository import File, FileType
+from aiida.common.exceptions import ModificationNotAllowed
 
 
 class TestRepository(AiidaTestCase):
@@ -147,3 +148,46 @@ def test_put_object_from_tree(self):
         key = os.path.join(basepath, 'subdir', 'a.txt')
         content = self.get_file_content(os.path.join('subdir', 'a.txt'))
         self.assertEqual(node.get_object_content(key), content)
+
+    def test_erase_unstored(self):
+        """
+        Test that _repository.erase removes the content of an unstored
+        node.
+        """
+        node = Node()
+        node.put_object_from_tree(self.tempdir, '')
+
+        self.assertEqual(sorted(node.list_object_names()), ['c.txt', 'subdir'])
+        self.assertEqual(sorted(node.list_object_names('subdir')), ['a.txt', 'b.txt', 'nested'])
+
+        node._repository.erase()  # pylint: disable=protected-access
+        self.assertEqual(node.list_object_names(), [])
+
+    def test_erase_stored_force(self):
+        """
+        Test that _repository.erase removes the content of an stored
+        Data node when passing force=True.
+        """
+        node = Data()
+        node.put_object_from_tree(self.tempdir, '')
+        node.store()
+
+        self.assertEqual(sorted(node.list_object_names()), ['c.txt', 'subdir'])
+        self.assertEqual(sorted(node.list_object_names('subdir')), ['a.txt', 'b.txt', 'nested'])
+
+        node._repository.erase(force=True)  # pylint: disable=protected-access
+        self.assertEqual(node.list_object_names(), [])
+
+    def test_erase_stored_raise(self):
+        """
+        Test that trying to erase the repository content of a stored
+        Data node without the force flag raises.
+        """
+        node = Data()
+        node.put_object_from_tree(self.tempdir, '')
+        node.store()
+
+        self.assertEqual(sorted(node.list_object_names()), ['c.txt', 'subdir'])
+        self.assertEqual(sorted(node.list_object_names('subdir')), ['a.txt', 'b.txt', 'nested'])
+
+        self.assertRaises(ModificationNotAllowed, node._repository.erase)  # pylint: disable=protected-access