diff --git a/jupyter_releaser/cli.py b/jupyter_releaser/cli.py
index 63ae5e8e..3800785b 100644
--- a/jupyter_releaser/cli.py
+++ b/jupyter_releaser/cli.py
@@ -93,6 +93,12 @@ def invoke(self, ctx):
         super().invoke(ctx)
 
         # Handle after hooks
+
+        # Re-read config if we just did a git checkout
+        if cmd_name == "prep-git":
+            config = util.read_config()
+            hooks = config.get("hooks", {})
+
         after = f"after-{cmd_name}"
         if after in hooks:
             after_hooks = hooks[after]