diff --git a/docs/release.rst b/docs/release.rst
index 697dfde3b8..05110f8ce1 100644
--- a/docs/release.rst
+++ b/docs/release.rst
@@ -28,12 +28,13 @@ Enhancements
 ~~~~~~~~~~~~
 * Added support for creating a copy of data when converting a `zarr.Array`
   to a numpy array.
-  By :user:`David Stansby <dstansby>`
+  By :user:`David Stansby <dstansby>` (:issue:`2106`) and 
+  :user:`Joe Hamman <jhamman>` (:issue:`2123`).
 
 Maintenance
 ~~~~~~~~~~~
 * Removed support for Python 3.9.
-  By :user:`David Stansby <dstansby>`
+  By :user:`David Stansby <dstansby>` (:issue:`2074`).
 
 * Fix a regression when using orthogonal indexing with a scalar.
   By :user:`Deepak Cherian <dcherian>` :issue:`1931`
@@ -41,6 +42,12 @@ Maintenance
 * Added compatibility with numpy 2.1.
   By :user:`David Stansby <dstansby>`
 
+Deprecations
+~~~~~~~~~~~~
+
+* Deprecate :class:`zarr.n5.N5Store` and :class:`zarr.n5.N5FSStore`. These
+  stores are slated to be removed in Zarr Python 3.0.
+  By :user:`Joe Hamman <jhamman>` :issue:`2085`.
 
 .. _release_2.18.2:
 
diff --git a/zarr/n5.py b/zarr/n5.py
index 3d3e9afa26..3bb7093128 100644
--- a/zarr/n5.py
+++ b/zarr/n5.py
@@ -69,8 +69,20 @@ class N5Store(NestedDirectoryStore):
 
     Safe to write in multiple threads or processes.
 
+    .. deprecated:: 2.18.3
+        `N5Store` will be removed in Zarr 3.0.0.
     """
 
+    def __init__(self, *args: Any, **kwargs: Any) -> None:
+        super().__init__(*args, **kwargs)
+        warnings.warn(
+            "The N5Store is deprecated and will be removed in a Zarr-Python version 3, "
+            "see https://github.com/zarr-developers/zarr-python/issues/1274 and "
+            "https://github.com/zarr-developers/n5py for more information.",
+            FutureWarning,
+            stacklevel=2,
+        )
+
     def __getitem__(self, key: str) -> bytes:
         if key.endswith(zarr_group_meta_key):
             key_new = key.replace(zarr_group_meta_key, n5_attrs_key)
@@ -322,6 +334,9 @@ class N5FSStore(FSStore):
     storage, and this procedure requires chunk keys with "." separated
     dimensions, hence the Zarr arrays targeting N5 have the deceptive
     "." dimension separator.
+
+    .. deprecated:: 2.18.3
+        `N5FSStore` will be removed in Zarr 3.0.0.
     """
 
     _array_meta_key = "attributes.json"
@@ -329,6 +344,13 @@ class N5FSStore(FSStore):
     _attrs_key = "attributes.json"
 
     def __init__(self, *args, **kwargs):
+        warnings.warn(
+            "The N5FSStore is deprecated and will be removed in a Zarr-Python version 3, "
+            "see https://github.com/zarr-developers/zarr-python/issues/1274 and "
+            "https://github.com/zarr-developers/n5py for more information.",
+            FutureWarning,
+            stacklevel=2,
+        )
         if "dimension_separator" in kwargs:
             kwargs.pop("dimension_separator")
             warnings.warn(