diff --git a/docs/patterns/cli.mdx b/docs/patterns/cli.mdx
index 7fd4cce4f..078aa37cd 100644
--- a/docs/patterns/cli.mdx
+++ b/docs/patterns/cli.mdx
@@ -300,13 +300,17 @@ Install a MCP server in MCP client applications. FastMCP currently supports the
 - **Claude Code** - Installs via Claude Code's built-in MCP management system
 - **Claude Desktop** - Installs via direct configuration file modification
 - **Cursor** - Installs via deeplink that opens Cursor for user confirmation
+- **Gemini CLI** - Installs via Gemini CLI's built-in MCP management system
 - **MCP JSON** - Generates standard MCP JSON configuration for manual use
+- **Stdio** - Outputs the shell command to run a server over stdio transport
 
 ```bash
 fastmcp install claude-code server.py
 fastmcp install claude-desktop server.py
 fastmcp install cursor server.py
+fastmcp install gemini-cli server.py
 fastmcp install mcp-json server.py
+fastmcp install stdio server.py
 ```
 
 Note that for security reasons, MCP clients usually run every server in a completely isolated environment. Therefore, all dependencies must be explicitly specified using the `--with` and/or `--with-editable` options (following `uv` conventions) or by attaching them to your server in code via the `dependencies` parameter. You should not assume that the MCP server will have access to your local environment.
@@ -394,6 +398,15 @@ fastmcp install mcp-json server.py --name "My Server" --with pandas
 
 # Copy JSON configuration to clipboard
 fastmcp install mcp-json server.py --copy
+
+# Output the stdio command for running a server
+fastmcp install stdio server.py
+
+# Output the stdio command from a fastmcp.json (includes configured dependencies)
+fastmcp install stdio fastmcp.json
+
+# Copy the stdio command to clipboard
+fastmcp install stdio server.py --copy
 ```
 
 ### MCP JSON Generation
@@ -436,6 +449,38 @@ To use this configuration with your MCP client, you'll typically need to add it
 | ------ | ---- | ----------- |
 | Copy to Clipboard | `--copy` | Copy configuration to clipboard instead of printing to stdout |
 
+### Stdio Command
+
+The `stdio` subcommand outputs the shell command an MCP host uses to start your server over stdio transport. Use it when you need a ready-to-paste `uv run --with fastmcp fastmcp run ...` command for a tool or script without a dedicated install target.
+
+```bash
+# Print the command to stdout
+fastmcp install stdio server.py
+
+# Output: uv run --with fastmcp fastmcp run /absolute/path/to/server.py
+```
+
+When you pass a `fastmcp.json`, FastMCP automatically includes dependencies from the configuration:
+
+```bash
+fastmcp install stdio fastmcp.json
+
+# Output: uv run --with fastmcp --with pillow --with 'qrcode[pil]>=8.0' fastmcp run /absolute/path/to/qr_server.py
+```
+
+Use `--copy` to send the command directly to your clipboard:
+
+```bash
+fastmcp install stdio server.py --copy
+# ✓ Command copied to clipboard
+```
+
+**Options specific to stdio:**
+
+| Option | Flag | Description |
+| ------ | ---- | ----------- |
+| Copy to Clipboard | `--copy` | Copy command to clipboard instead of printing to stdout |
+
 ## `fastmcp inspect`
 
 <VersionBadge version="2.9.0" />
diff --git a/src/fastmcp/cli/install/__init__.py b/src/fastmcp/cli/install/__init__.py
index 9b3e3960d..5b8e30f15 100644
--- a/src/fastmcp/cli/install/__init__.py
+++ b/src/fastmcp/cli/install/__init__.py
@@ -7,6 +7,7 @@ from .claude_desktop import claude_desktop_command
 from .cursor import cursor_command
 from .gemini_cli import gemini_cli_command
 from .mcp_json import mcp_json_command
+from .stdio import stdio_command
 
 # Create a cyclopts app for install subcommands
 install_app = cyclopts.App(
@@ -20,3 +21,4 @@ install_app.command(claude_desktop_command, name="claude-desktop")
 install_app.command(cursor_command, name="cursor")
 install_app.command(gemini_cli_command, name="gemini-cli")
 install_app.command(mcp_json_command, name="mcp-json")
+install_app.command(stdio_command, name="stdio")
diff --git a/src/fastmcp/cli/install/shared.py b/src/fastmcp/cli/install/shared.py
index 8e183562a..c84e49a25 100644
--- a/src/fastmcp/cli/install/shared.py
+++ b/src/fastmcp/cli/install/shared.py
@@ -42,6 +42,7 @@ async def process_common_args(
     env_vars = env_vars or []
     # Create MCPServerConfig from server_spec
     config = None
+    config_path: Path | None = None
     if server_spec.endswith(".json"):
         config_path = Path(server_spec).resolve()
         if not config_path.exists():
@@ -76,7 +77,12 @@ async def process_common_args(
 
     # Extract file and server_object from the source
     # The FileSystemSource handles parsing path:object syntax
-    file = Path(config.source.path).resolve()
+    source_path = Path(config.source.path).expanduser()
+    # If loaded from a JSON config, resolve relative paths against the config's directory
+    if not source_path.is_absolute() and config_path is not None:
+        file = (config_path.parent / source_path).resolve()
+    else:
+        file = source_path.resolve()
     server_object = (
         config.source.entrypoint if hasattr(config.source, "entrypoint") else None
     )
@@ -91,14 +97,21 @@ async def process_common_args(
         },
     )
 
-    # Try to import server to get its name and dependencies
+    # Verify the resolved file actually exists
+    if not file.is_file():
+        print(f"[red]Server file not found: {file}[/red]")
+        sys.exit(1)
+
+    # Try to import server to get its name and dependencies.
+    # load_server() resolves paths against cwd, which may differ from our
+    # config-relative resolution, so we catch SystemExit from its file check.
     name = server_name
     server = None
     if not name:
         try:
             server = await config.source.load_server()
             name = server.name
-        except (ImportError, ModuleNotFoundError) as e:
+        except (ImportError, ModuleNotFoundError, SystemExit) as e:
             logger.debug(
                 "Could not import server (likely missing dependencies), using file name",
                 extra={"error": str(e)},
diff --git a/src/fastmcp/cli/install/stdio.py b/src/fastmcp/cli/install/stdio.py
new file mode 100644
index 000000000..31c89c1dc
--- /dev/null
+++ b/src/fastmcp/cli/install/stdio.py
@@ -0,0 +1,156 @@
+"""Stdio command generation for FastMCP install using Cyclopts."""
+
+import builtins
+import shlex
+import sys
+from pathlib import Path
+from typing import Annotated
+
+import cyclopts
+import pyperclip
+from rich import print as rich_print
+
+from fastmcp.utilities.logging import get_logger
+from fastmcp.utilities.mcp_server_config.v1.environments.uv import UVEnvironment
+
+from .shared import process_common_args
+
+logger = get_logger(__name__)
+
+
+def install_stdio(
+    file: Path,
+    server_object: str | None,
+    *,
+    with_editable: list[Path] | None = None,
+    with_packages: list[str] | None = None,
+    copy: bool = False,
+    python_version: str | None = None,
+    with_requirements: Path | None = None,
+    project: Path | None = None,
+) -> bool:
+    """Generate the stdio command for running a FastMCP server.
+
+    Args:
+        file: Path to the server file
+        server_object: Optional server object name (for :object suffix)
+        with_editable: Optional list of directories to install in editable mode
+        with_packages: Optional list of additional packages to install
+        copy: If True, copy to clipboard instead of printing to stdout
+        python_version: Optional Python version to use
+        with_requirements: Optional requirements file to install from
+        project: Optional project directory to run within
+
+    Returns:
+        True if generation was successful, False otherwise
+    """
+    try:
+        env_config = UVEnvironment(
+            python=python_version,
+            dependencies=(with_packages or []) + ["fastmcp"],
+            requirements=with_requirements,
+            project=project,
+            editable=with_editable,
+        )
+        # Build server spec from parsed components
+        if server_object:
+            server_spec = f"{file.resolve()}:{server_object}"
+        else:
+            server_spec = str(file.resolve())
+
+        # Build the full command
+        full_command = env_config.build_command(["fastmcp", "run", server_spec])
+        command_str = shlex.join(full_command)
+
+        if copy:
+            pyperclip.copy(command_str)
+            rich_print("[green]✓ Command copied to clipboard[/green]")
+        else:
+            builtins.print(command_str)
+
+        return True
+
+    except (OSError, ValueError, pyperclip.PyperclipException) as e:
+        rich_print(f"[red]Failed to generate stdio command: {e}[/red]")
+        return False
+
+
+async def stdio_command(
+    server_spec: str,
+    *,
+    server_name: Annotated[
+        str | None,
+        cyclopts.Parameter(
+            name=["--name", "-n"],
+            help="Custom name for the server (used for dependency resolution)",
+        ),
+    ] = None,
+    with_editable: Annotated[
+        list[Path] | None,
+        cyclopts.Parameter(
+            "--with-editable",
+            help="Directory with pyproject.toml to install in editable mode (can be used multiple times)",
+        ),
+    ] = None,
+    with_packages: Annotated[
+        list[str] | None,
+        cyclopts.Parameter(
+            "--with", help="Additional packages to install (can be used multiple times)"
+        ),
+    ] = None,
+    copy: Annotated[
+        bool,
+        cyclopts.Parameter(
+            "--copy",
+            help="Copy command to clipboard instead of printing to stdout",
+        ),
+    ] = False,
+    python: Annotated[
+        str | None,
+        cyclopts.Parameter(
+            "--python",
+            help="Python version to use (e.g., 3.10, 3.11)",
+        ),
+    ] = None,
+    with_requirements: Annotated[
+        Path | None,
+        cyclopts.Parameter(
+            "--with-requirements",
+            help="Requirements file to install dependencies from",
+        ),
+    ] = None,
+    project: Annotated[
+        Path | None,
+        cyclopts.Parameter(
+            "--project",
+            help="Run the command within the given project directory",
+        ),
+    ] = None,
+) -> None:
+    """Generate the stdio command for running a FastMCP server.
+
+    Outputs the shell command that an MCP host would use to start this server
+    over stdio transport. Useful for manual configuration or debugging.
+
+    Args:
+        server_spec: Python file to run, optionally with :object suffix
+    """
+    with_editable = with_editable or []
+    with_packages = with_packages or []
+    file, server_object, _name, packages, _env_dict = await process_common_args(
+        server_spec, server_name, with_packages, [], None
+    )
+
+    success = install_stdio(
+        file=file,
+        server_object=server_object,
+        with_editable=with_editable,
+        with_packages=packages,
+        copy=copy,
+        python_version=python,
+        with_requirements=with_requirements,
+        project=project,
+    )
+
+    if not success:
+        sys.exit(1)
diff --git a/tests/cli/test_install.py b/tests/cli/test_install.py
index 6cffefa78..5a883665c 100644
--- a/tests/cli/test_install.py
+++ b/tests/cli/test_install.py
@@ -1,6 +1,7 @@
 from pathlib import Path
 
 from fastmcp.cli.install import install_app
+from fastmcp.cli.install.stdio import install_stdio
 
 
 class TestInstallApp:
@@ -26,6 +27,7 @@ class TestInstallApp:
             install_app.parse_args(["cursor", "--help"])
             install_app.parse_args(["gemini-cli", "--help"])
             install_app.parse_args(["mcp-json", "--help"])
+            install_app.parse_args(["stdio", "--help"])
         except SystemExit:
             # Help commands exit with 0, that's expected
             pass
@@ -185,6 +187,74 @@ class TestMcpJsonInstall:
         assert bound.arguments["copy"] is True
 
 
+class TestStdioInstall:
+    """Test stdio install command."""
+
+    def test_stdio_basic(self):
+        """Test basic stdio install command parsing."""
+        command, bound, _ = install_app.parse_args(["stdio", "server.py"])
+
+        assert command is not None
+        assert bound.arguments["server_spec"] == "server.py"
+
+    def test_stdio_with_copy(self):
+        """Test stdio install with copy to clipboard option."""
+        command, bound, _ = install_app.parse_args(["stdio", "server.py", "--copy"])
+
+        assert bound.arguments["copy"] is True
+
+    def test_stdio_with_packages(self):
+        """Test stdio install with additional packages."""
+        command, bound, _ = install_app.parse_args(
+            ["stdio", "server.py", "--with", "requests", "--with", "httpx"]
+        )
+
+        assert bound.arguments["with_packages"] == ["requests", "httpx"]
+
+    def test_install_stdio_generates_command(self, tmp_path: Path):
+        """Test that install_stdio produces a shell command containing fastmcp run."""
+        server_file = tmp_path / "server.py"
+        server_file.write_text("# placeholder")
+
+        # Capture stdout
+        import io
+        import sys
+
+        captured = io.StringIO()
+        old_stdout = sys.stdout
+        sys.stdout = captured
+        try:
+            result = install_stdio(file=server_file, server_object=None)
+        finally:
+            sys.stdout = old_stdout
+
+        assert result is True
+        output = captured.getvalue()
+        assert "fastmcp" in output
+        assert "run" in output
+        assert str(server_file.resolve()) in output
+
+    def test_install_stdio_with_object(self, tmp_path: Path):
+        """Test that install_stdio includes the :object suffix."""
+        server_file = tmp_path / "server.py"
+        server_file.write_text("# placeholder")
+
+        import io
+        import sys
+
+        captured = io.StringIO()
+        old_stdout = sys.stdout
+        sys.stdout = captured
+        try:
+            result = install_stdio(file=server_file, server_object="app")
+        finally:
+            sys.stdout = old_stdout
+
+        assert result is True
+        output = captured.getvalue()
+        assert f"{server_file.resolve()}:app" in output
+
+
 class TestGeminiCliInstall:
     """Test gemini-cli install command."""
 
@@ -253,6 +323,7 @@ class TestInstallCommandParsing:
             ["claude-desktop", "server.py"],
             ["cursor", "server.py"],
             ["gemini-cli", "server.py"],
+            ["stdio", "server.py"],
         ]
 
         for cmd_args in commands_to_test:
@@ -267,6 +338,12 @@ class TestInstallCommandParsing:
         assert command is not None
         assert bound.arguments["server_spec"] == "server.py"
 
+    def test_stdio_minimal(self):
+        """Test that stdio works with minimal arguments."""
+        command, bound, _ = install_app.parse_args(["stdio", "server.py"])
+        assert command is not None
+        assert bound.arguments["server_spec"] == "server.py"
+
     def test_python_option(self):
         """Test --python option for all install commands."""
         commands_to_test = [
@@ -275,6 +352,7 @@ class TestInstallCommandParsing:
             ["cursor", "server.py", "--python", "3.11"],
             ["gemini-cli", "server.py", "--python", "3.11"],
             ["mcp-json", "server.py", "--python", "3.11"],
+            ["stdio", "server.py", "--python", "3.11"],
         ]
 
         for cmd_args in commands_to_test:
@@ -290,6 +368,7 @@ class TestInstallCommandParsing:
             ["cursor", "server.py", "--with-requirements", "requirements.txt"],
             ["gemini-cli", "server.py", "--with-requirements", "requirements.txt"],
             ["mcp-json", "server.py", "--with-requirements", "requirements.txt"],
+            ["stdio", "server.py", "--with-requirements", "requirements.txt"],
         ]
 
         for cmd_args in commands_to_test:
@@ -305,6 +384,7 @@ class TestInstallCommandParsing:
             ["cursor", "server.py", "--project", "/path/to/project"],
             ["gemini-cli", "server.py", "--project", "/path/to/project"],
             ["mcp-json", "server.py", "--project", "/path/to/project"],
+            ["stdio", "server.py", "--project", "/path/to/project"],
         ]
 
         for cmd_args in commands_to_test: