diff --git a/.ci/scripts/merge/apply-patches-by-label-private.py b/.ci/scripts/merge/apply-patches-by-label-private.py
index fe0acd5102..16b45043ed 100644
--- a/.ci/scripts/merge/apply-patches-by-label-private.py
+++ b/.ci/scripts/merge/apply-patches-by-label-private.py
@@ -25,7 +25,7 @@ def check_individual(repo_id, pr_id):
 
 def merge_pr(pn, ref):
     print("Matched PR# %s" % pn)
-    print(subprocess.check_output(["git", "fetch", "https://%sdev.azure.com/%s/_git/%s" % (user, org, repo), ref, "-f"]))
+    print(subprocess.check_output(["git", "fetch", "https://%sdev.azure.com/%s/_git/%s" % (user, org, repo), ref, "-f", "--no-recurse-submodules"]))
     print(subprocess.check_output(["git", "merge", "--squash", 'origin/' + ref.replace('refs/heads/','')]))
     print(subprocess.check_output(["git", "commit", "-m\"Merge %s PR %s\"" % (tagline, pn)]))
 
diff --git a/.ci/scripts/merge/apply-patches-by-label.py b/.ci/scripts/merge/apply-patches-by-label.py
index b2e430ac7a..c288a70a1e 100644
--- a/.ci/scripts/merge/apply-patches-by-label.py
+++ b/.ci/scripts/merge/apply-patches-by-label.py
@@ -25,7 +25,7 @@ def do_page(page):
             if (check_individual(pr["labels"])):
                 pn = pr["number"]
                 print("Matched PR# %s" % pn)
-                print(subprocess.check_output(["git", "fetch", "https://github.com/yuzu-emu/yuzu.git", "pull/%s/head:pr-%s" % (pn, pn), "-f"]))
+                print(subprocess.check_output(["git", "fetch", "https://github.com/yuzu-emu/yuzu.git", "pull/%s/head:pr-%s" % (pn, pn), "-f", "--no-recurse-submodules"]))
                 print(subprocess.check_output(["git", "merge", "--squash", "pr-%s" % pn]))
                 print(subprocess.check_output(["git", "commit", "-m\"Merge %s PR %s\"" % (tagline, pn)]))