diff --git a/cli/tools/installer.rs b/cli/tools/installer.rs
index 0f14782a48..a021ac74fa 100644
--- a/cli/tools/installer.rs
+++ b/cli/tools/installer.rs
@@ -411,6 +411,12 @@ async fn install_global(
     .load_and_type_check_files(&[install_flags_global.module_url.clone()])
     .await?;
 
+  if matches!(flags.config_flag, ConfigFlag::Discover)
+    && cli_options.workspace().deno_jsons().next().is_some()
+  {
+    log::warn!("{} discovered config file will be ignored in the installed command. Use the --config flag if you wish to include it.", crate::colors::yellow("Warning"));
+  }
+
   // create the install shim
   create_install_shim(http_client, &flags, install_flags_global).await
 }
diff --git a/tests/specs/install/global/warn_config_file/__test__.jsonc b/tests/specs/install/global/warn_config_file/__test__.jsonc
new file mode 100644
index 0000000000..1d36d4c143
--- /dev/null
+++ b/tests/specs/install/global/warn_config_file/__test__.jsonc
@@ -0,0 +1,5 @@
+{
+  "tempDir": true,
+  "args": "install --root ./bins -g --name my-cli main.js",
+  "output": "install.out"
+}
diff --git a/tests/specs/install/global/warn_config_file/deno.json b/tests/specs/install/global/warn_config_file/deno.json
new file mode 100644
index 0000000000..2c63c08510
--- /dev/null
+++ b/tests/specs/install/global/warn_config_file/deno.json
@@ -0,0 +1,2 @@
+{
+}
diff --git a/tests/specs/install/global/warn_config_file/install.out b/tests/specs/install/global/warn_config_file/install.out
new file mode 100644
index 0000000000..4ce57be390
--- /dev/null
+++ b/tests/specs/install/global/warn_config_file/install.out
@@ -0,0 +1,3 @@
+Warning discovered config file will be ignored in the installed command. Use the --config flag if you wish to include it.
+✅ Successfully installed my-cli
+[WILDCARD]
diff --git a/tests/specs/install/global/warn_config_file/main.js b/tests/specs/install/global/warn_config_file/main.js
new file mode 100644
index 0000000000..296d5492b0
--- /dev/null
+++ b/tests/specs/install/global/warn_config_file/main.js
@@ -0,0 +1 @@
+console.log(1);