diff --git a/news/13407.bugfix.rst b/news/13407.bugfix.rst
new file mode 100644
index 00000000000..0b3d7721306
--- /dev/null
+++ b/news/13407.bugfix.rst
@@ -0,0 +1,3 @@
+Modified to percent-encode the revision part in version control URLs.
+For example, use ``git+https://example.com/repo.git@issue%231`` to specify the branch ``issue#1``.
+If you previously used a branch name containing a ``%`` character in a version control URL, you now need to replace it with ``%25`` to ensure correct percent-encoding.
diff --git a/src/pip/_internal/vcs/versioncontrol.py b/src/pip/_internal/vcs/versioncontrol.py
index 4e91ccd4c4c..95cefb49e24 100644
--- a/src/pip/_internal/vcs/versioncontrol.py
+++ b/src/pip/_internal/vcs/versioncontrol.py
@@ -62,8 +62,9 @@ def make_vcs_requirement_url(
       repo_url: the remote VCS url, with any needed VCS prefix (e.g. "git+").
       project_name: the (unescaped) project name.
     """
+    quoted_rev = urllib.parse.quote(rev, "/")
     egg_project_name = project_name.replace("-", "_")
-    req = f"{repo_url}@{rev}#egg={egg_project_name}"
+    req = f"{repo_url}@{quoted_rev}#egg={egg_project_name}"
     if subdir:
         req += f"&subdirectory={subdir}"
 
@@ -397,6 +398,7 @@ def get_url_rev_and_auth(cls, url: str) -> tuple[str, str | None, AuthInfo]:
                     "which is not supported. Include a revision after @ "
                     "or remove @ from the URL."
                 )
+            rev = urllib.parse.unquote(rev)
         url = urllib.parse.urlunsplit((scheme, netloc, path, query, ""))
         return url, rev, user_pass
 
diff --git a/tests/unit/test_vcs.py b/tests/unit/test_vcs.py
index 93f68fd7b72..73de6de832f 100644
--- a/tests/unit/test_vcs.py
+++ b/tests/unit/test_vcs.py
@@ -52,6 +52,11 @@ def test_ensure_svn_available() -> None:
             ("git+https://example.com/pkg", "dev", "zope-interface"),
             "git+https://example.com/pkg@dev#egg=zope_interface",
         ),
+        # Test a revision with special characters.
+        (
+            ("git+https://example.com/pkg", "dev@1#2", "myproj"),
+            "git+https://example.com/pkg@dev%401%232#egg=myproj",
+        ),
     ],
 )
 def test_make_vcs_requirement_url(args: tuple[Any, ...], expected: str) -> None:
@@ -394,6 +399,11 @@ def test_git__get_url_rev__idempotent() -> None:
             "svn+https://svn.example.com/My+Project",
             ("https://svn.example.com/My+Project", None, (None, None)),
         ),
+        # Test percent-encoded characters in revision.
+        (
+            "svn+https://svn.example.com/MyProject@dev%401%232",
+            ("https://svn.example.com/MyProject", "dev@1#2", (None, None)),
+        ),
     ],
 )
 def test_version_control__get_url_rev_and_auth(