diff --git a/experiments/issue-46-redirection-parity.mjs b/experiments/issue-46-redirection-parity.mjs
index 007267d3..2566d359 100644
--- a/experiments/issue-46-redirection-parity.mjs
+++ b/experiments/issue-46-redirection-parity.mjs
@@ -6,7 +6,8 @@
 // (virtual) command is dispatched to that built-in with the shell operators
 // left in place as literal arguments, so the redirection silently does
 // nothing. This script diffs command-stream against /bin/sh so any divergence
-// in exit code, stdout, or files written is visible.
+// in exit code, stdout, stderr, or files written is visible. Issue #47 exposed
+// the stderr part of that contract with a CLI success URL.
 import { execSync, spawnSync } from 'child_process';
 import { mkdtempSync, rmSync, writeFileSync } from 'fs';
 import { tmpdir } from 'os';
@@ -28,6 +29,8 @@ const CASES = [
   'seq 1 3 > out.txt',
   'basename /a/b > out.txt',
   // stderr redirection on a built-in.
+  'echo https://github.com/octo/example/pull/123 >&2',
+  "sh -c 'echo https://github.com/octo/example/pull/123 >&2' 2>&1",
   'echo hello 2> err.txt',
   'ls /definitely/missing/path 2>/dev/null',
   'ls /definitely/missing/path 2>&1',
@@ -57,14 +60,18 @@ for (const cmd of CASES) {
     cwd: dirSh,
     encoding: 'utf8',
   });
-  const expected = { code: sh.status, stdout: sh.stdout };
+  const expected = {
+    code: sh.status,
+    stdout: sh.stdout,
+    stderr: sh.stderr,
+  };
 
   let actual;
   try {
     const r = await $({ cwd: dirCs, mirror: false })`${{ raw: cmd }}`;
-    actual = { code: r.code, stdout: r.stdout };
+    actual = { code: r.code, stdout: r.stdout, stderr: r.stderr };
   } catch (e) {
-    actual = { code: e.code, stdout: e.stdout };
+    actual = { code: e.code, stdout: e.stdout, stderr: e.stderr };
   }
 
   const shFiles = execSync('ls -1', { cwd: dirSh, encoding: 'utf8' }).trim();
@@ -78,6 +85,8 @@ for (const cmd of CASES) {
     expected.code === actual.code &&
     expected.stdout.replaceAll(dirSh, '<CWD>') ===
       actual.stdout.replaceAll(dirCs, '<CWD>') &&
+    expected.stderr.replaceAll(dirSh, '<CWD>') ===
+      actual.stderr.replaceAll(dirCs, '<CWD>') &&
     shFiles === csFiles &&
     shOut === csOut;
   if (!same) {
@@ -86,10 +95,10 @@ for (const cmd of CASES) {
   console.log(`${same ? 'OK  ' : 'DIFF'} ${JSON.stringify(cmd)}`);
   if (!same) {
     console.log(
-      `      sh: code=${expected.code} stdout=${JSON.stringify(expected.stdout)} files=${JSON.stringify(shFiles)} contents=${JSON.stringify(shOut)}`
+      `      sh: code=${expected.code} stdout=${JSON.stringify(expected.stdout)} stderr=${JSON.stringify(expected.stderr)} files=${JSON.stringify(shFiles)} contents=${JSON.stringify(shOut)}`
     );
     console.log(
-      `      cs: code=${actual.code} stdout=${JSON.stringify(actual.stdout)} files=${JSON.stringify(csFiles)} contents=${JSON.stringify(csOut)}`
+      `      cs: code=${actual.code} stdout=${JSON.stringify(actual.stdout)} stderr=${JSON.stringify(actual.stderr)} files=${JSON.stringify(csFiles)} contents=${JSON.stringify(csOut)}`
     );
   }
   rmSync(dirSh, { recursive: true, force: true });
diff --git a/js/.changeset/issue-47-stderr-only-output.md b/js/.changeset/issue-47-stderr-only-output.md
new file mode 100644
index 00000000..553cfd9e
--- /dev/null
+++ b/js/.changeset/issue-47-stderr-only-output.md
@@ -0,0 +1,6 @@
+---
+'command-stream': patch
+---
+
+Guarantee that successful stderr-only CLI output remains separately captured,
+including pull request URLs, while `2>&1` retains normal shell merge behavior.
diff --git a/js/README.md b/js/README.md
index 10cf5426..5bfdd6e6 100644
--- a/js/README.md
+++ b/js/README.md
@@ -1416,6 +1416,29 @@ console.log('Captured stderr:', result.stderr); // "Error!\n"
 console.log('Exit code:', result.code); // 0
 ```
 
+### Successful CLI output on stderr
+
+Command-stream preserves the file descriptor chosen by the child process. A
+successful command can therefore have an empty `stdout` and useful `stderr`.
+For example, some CLI versions have printed a newly created pull request URL to
+stderr:
+
+```javascript
+const result = await $({ mirror: false })`gh pr create --fill`;
+const prUrl = `${result.stdout}\n${result.stderr}`.match(
+  /^https:\/\/github\.com\/.*\/pull\/\d+$/m
+)?.[0];
+```
+
+When one combined stream is more convenient, use normal shell redirection. It
+is opt-in because the shell-like default keeps stdout and stderr distinct:
+
+```javascript
+const result = await $({ mirror: false })`gh pr create --fill 2>&1`;
+console.log(result.stdout); // includes anything the command wrote to stderr
+console.log(result.stderr); // empty after the redirection
+```
+
 **Key Default Options:**
 
 - `mirror: true` - Live output to terminal (like shell)
diff --git a/js/tests/competitor-compatibility.test.mjs b/js/tests/competitor-compatibility.test.mjs
index 069543de..4755a3de 100644
--- a/js/tests/competitor-compatibility.test.mjs
+++ b/js/tests/competitor-compatibility.test.mjs
@@ -451,13 +451,29 @@ describe('ported public process behavior', () => {
 
   port(
     'stdout-stderr-separation',
-    'captures stdout and stderr independently',
+    'captures stdout-only, stderr-only, and mixed output independently',
     async () => {
-      const result = await runFixture('stdio', ['out\n', 'err\n']);
+      const cases = [
+        { stdout: 'out\n', stderr: 'err\n' },
+        { stdout: 'out-only\n', stderr: '' },
+        // A successful CLI may use stderr for machine-readable output. gh pr
+        // create was reported to do this for its URL in issue #47.
+        {
+          stdout: '',
+          stderr: 'https://github.com/octo/example/pull/123\n',
+        },
+      ];
 
-      expect(result.code).toBe(0);
-      expect(result.stdout).toBe('out\n');
-      expect(result.stderr).toBe('err\n');
+      for (const expected of cases) {
+        const result = await runFixture('stdio', [
+          expected.stdout,
+          expected.stderr,
+        ]);
+
+        expect(result.code).toBe(0);
+        expect(result.stdout).toBe(expected.stdout);
+        expect(result.stderr).toBe(expected.stderr);
+      }
     }
   );
 
diff --git a/js/tests/redirection-silent-failure.test.mjs b/js/tests/redirection-silent-failure.test.mjs
index 4113a51d..49f3ac89 100644
--- a/js/tests/redirection-silent-failure.test.mjs
+++ b/js/tests/redirection-silent-failure.test.mjs
@@ -74,6 +74,11 @@ describe('Redirection is never handed to a built-in as an argument (issue #46)',
     'cat /definitely/missing/path 2>/dev/null',
     'ls /definitely/missing/path 2>/dev/null',
     'ls /definitely/missing/path 2>&1',
+    // gh pr create was reported to emit its success URL on stderr (issue #47).
+    // Preserve the stream selected by the child/shell instead of losing or
+    // silently relabelling it.
+    'echo https://github.com/octo/example/pull/123 >&2',
+    "sh -c 'echo https://github.com/octo/example/pull/123 >&2' 2>&1",
     'exit 3 2>&1',
     'echo a > out.txt && echo b >> out.txt',
     'false > out.txt || echo fallback > out.txt',
@@ -93,12 +98,21 @@ describe('Redirection is never handed to a built-in as an argument (issue #46)',
           cwd: csDir,
           mirror: false,
         })`${{ raw: command }}`;
-        actual = { code: result.code, stdout: result.stdout };
+        actual = {
+          code: result.code,
+          stdout: result.stdout,
+          stderr: result.stderr,
+        };
       } catch (error) {
-        actual = { code: error.code, stdout: error.stdout };
+        actual = {
+          code: error.code,
+          stdout: error.stdout,
+          stderr: error.stderr,
+        };
       }
 
       expect(actual.stdout).toBe(expected.stdout);
+      expect(actual.stderr).toBe(expected.stderr);
       expect(actual.code).toBe(expected.code);
       expect(await snapshot(csDir)).toEqual(await snapshot(shDir));
     });
diff --git a/rust/README.md b/rust/README.md
index bf93e912..3fa16823 100644
--- a/rust/README.md
+++ b/rust/README.md
@@ -44,6 +44,31 @@ async fn main() {
 }
 ```
 
+### Successful CLI output on stderr
+
+Command-stream preserves the file descriptor chosen by the child process. A
+zero exit code can therefore accompany an empty `stdout` and useful `stderr`.
+Check both when a CLI version may print a machine-readable result, such as a
+new pull request URL, to stderr:
+
+```rust,no_run
+use command_stream::run;
+
+# async fn example() -> Result<(), command_stream::Error> {
+let result = run("gh pr create --fill").await?;
+let pull_request_url = result
+    .stdout
+    .lines()
+    .chain(result.stderr.lines())
+    .find(|line| line.starts_with("https://github.com/"));
+# let _ = pull_request_url;
+# Ok(())
+# }
+```
+
+Append `2>&1` to the command when normal shell stream merging is preferred. The
+merged output is captured in `stdout`, while `stderr` is empty.
+
 ## Streaming
 
 `StreamingRunner` streams output as it arrives and mirrors the JavaScript
diff --git a/rust/changelog.d/20260915_124000_stderr_only_output.md b/rust/changelog.d/20260915_124000_stderr_only_output.md
new file mode 100644
index 00000000..a4afaaac
--- /dev/null
+++ b/rust/changelog.d/20260915_124000_stderr_only_output.md
@@ -0,0 +1,8 @@
+---
+bump: patch
+---
+
+### Fixed
+
+- Guarantee that successful stderr-only CLI output remains separately captured,
+  including pull request URLs, while `2>&1` retains normal shell merge behavior.
diff --git a/rust/tests/competitor_compatibility/behavior.rs b/rust/tests/competitor_compatibility/behavior.rs
index c2c78d80..389ab2b5 100644
--- a/rust/tests/competitor_compatibility/behavior.rs
+++ b/rust/tests/competitor_compatibility/behavior.rs
@@ -133,11 +133,19 @@ async fn environment_passes_explicit_values_to_the_child() {
 
 #[tokio::test]
 async fn stdout_and_stderr_are_captured_separately() {
-    let result = run_fixture("output", &["out-value", "err-value"]).await;
+    for (stdout, stderr) in [
+        ("out-value", "err-value"),
+        ("out-only", ""),
+        // A successful CLI may use stderr for machine-readable output. gh pr
+        // create was reported to do this for its URL in issue #47.
+        ("", "https://github.com/octo/example/pull/123\n"),
+    ] {
+        let result = run_fixture("output", &[stdout, stderr]).await;
 
-    assert_eq!(result.code, 0);
-    assert_eq!(result.stdout, "out-value");
-    assert_eq!(result.stderr, "err-value");
+        assert_eq!(result.code, 0);
+        assert_eq!(result.stdout, stdout);
+        assert_eq!(result.stderr, stderr);
+    }
 }
 
 #[tokio::test]
diff --git a/rust/tests/redirection_silent_failure.rs b/rust/tests/redirection_silent_failure.rs
index 102e168b..7ca93994 100644
--- a/rust/tests/redirection_silent_failure.rs
+++ b/rust/tests/redirection_silent_failure.rs
@@ -14,8 +14,8 @@ use std::path::Path;
 use std::process::Command;
 use tempfile::TempDir;
 
-/// Run `command` in `dir` through /bin/sh and return (exit code, stdout).
-fn run_in_sh(command: &str, dir: &Path) -> (i32, String) {
+/// Run `command` in `dir` through /bin/sh and return its captured result.
+fn run_in_sh(command: &str, dir: &Path) -> (i32, String, String) {
     let output = Command::new("/bin/sh")
         .arg("-c")
         .arg(command)
@@ -25,6 +25,7 @@ fn run_in_sh(command: &str, dir: &Path) -> (i32, String) {
     (
         output.status.code().unwrap_or(-1),
         String::from_utf8_lossy(&output.stdout).into_owned(),
+        String::from_utf8_lossy(&output.stderr).into_owned(),
     )
 }
 
@@ -54,7 +55,7 @@ async fn assert_matches_sh(command: &str) {
     let sh_dir = scratch();
     let cs_dir = scratch();
 
-    let (expected_code, expected_stdout) = run_in_sh(command, sh_dir.path());
+    let (expected_code, expected_stdout, expected_stderr) = run_in_sh(command, sh_dir.path());
 
     let mut runner = ProcessRunner::new(
         command,
@@ -71,6 +72,11 @@ async fn assert_matches_sh(command: &str) {
         "stdout mismatch for {:?}",
         command
     );
+    assert_eq!(
+        result.stderr, expected_stderr,
+        "stderr mismatch for {:?}",
+        command
+    );
     assert_eq!(
         result.code, expected_code,
         "exit code mismatch for {:?}",
@@ -101,6 +107,10 @@ async fn redirection_on_virtual_commands_matches_sh() {
         "cat 0< seed.txt",
         "cat /definitely/missing/path 2>/dev/null",
         "ls /definitely/missing/path 2>&1",
+        // gh pr create was reported to emit its success URL on stderr (issue
+        // #47). Preserve that stream instead of dropping or relabelling it.
+        "echo https://github.com/octo/example/pull/123 >&2",
+        "sh -c 'echo https://github.com/octo/example/pull/123 >&2' 2>&1",
         "echo a > out.txt && echo b >> out.txt",
         "false > out.txt || echo fallback > out.txt",
         // Quoted redirection characters are literal in sh, so they must stay