diff --git a/qmk_cli/subcommands/clone.py b/qmk_cli/subcommands/clone.py
index 471a076..ae1140a 100644
--- a/qmk_cli/subcommands/clone.py
+++ b/qmk_cli/subcommands/clone.py
@@ -11,20 +11,20 @@ default_fork = 'qmk/' + default_repo
 default_branch = 'master'
 
 
-@cli.argument('--baseurl', default='https://github.com', help='The URL all git operations start from (Default: https://github.com)')
-@cli.argument('-b', '--branch', default=default_branch, help='The branch to clone. Default: %s' % default_branch)
-@cli.argument('destination', default=None, nargs='?', help='The directory to clone to. Default: (current directory)')
-@cli.argument('fork', default=default_fork, nargs='?', help='The qmk_firmware fork to clone. Default: %s' % default_fork)
+@cli.argument('--baseurl', arg_only=True, default='https://github.com', help='The URL all git operations start from (Default: https://github.com)')
+@cli.argument('-b', '--branch', arg_only=True, default=default_branch, help='The branch to clone. Default: %s' % default_branch)
+@cli.argument('destination', arg_only=True, default=None, nargs='?', help='The directory to clone to. Default: (current directory)')
+@cli.argument('fork', arg_only=True, default=default_fork, nargs='?', help='The qmk_firmware fork to clone. Default: %s' % default_fork)
 @cli.subcommand('Clone a qmk_firmware fork.')
 def clone(cli):
     if not cli.args.destination:
         cli.args.destination = os.path.join(os.environ['ORIG_CWD'], default_fork.split('/')[-1])
 
     qmk_firmware = Path(cli.args.destination)
-    git_url = '/'.join((cli.config.clone.baseurl, cli.args.fork))
+    git_url = '/'.join((cli.args.baseurl, cli.args.fork))
 
     if qmk_firmware.exists():
         cli.log.error('Destination already exists: %s', cli.args.destination)
         exit(1)
 
-    return git_clone(git_url, cli.args.destination, cli.config.clone.branch)
+    return git_clone(git_url, cli.args.destination, cli.args.branch)
diff --git a/qmk_cli/subcommands/env.py b/qmk_cli/subcommands/env.py
index d830b2f..1f10874 100644
--- a/qmk_cli/subcommands/env.py
+++ b/qmk_cli/subcommands/env.py
@@ -7,7 +7,7 @@ from milc import cli
 from qmk_cli.helpers import is_qmk_firmware
 
 
-@cli.argument('var', default=None, nargs='?', help='Optional variable to query')
+@cli.argument('var', arg_only=True, default=None, nargs='?', help='Optional variable to query')
 @cli.subcommand('Prints environment information.')
 def env(cli):
     home = os.environ.get('QMK_HOME', "")
diff --git a/qmk_cli/subcommands/setup.py b/qmk_cli/subcommands/setup.py
index 2621082..83a3f3b 100644
--- a/qmk_cli/subcommands/setup.py
+++ b/qmk_cli/subcommands/setup.py
@@ -20,7 +20,7 @@ default_branch = 'master'
 def git_upstream(destination):
     """Add the qmk/qmk_firmware upstream to a qmk_firmware clone.
     """
-    git_url = '/'.join((cli.config.setup.baseurl, default_fork))
+    git_url = '/'.join((cli.args.baseurl, default_fork))
     git_cmd = [
         'git',
         '-C',
@@ -45,10 +45,10 @@ def git_upstream(destination):
 
 @cli.argument('-n', '--no', arg_only=True, action='store_true', help='Answer no to all questions')
 @cli.argument('-y', '--yes', arg_only=True, action='store_true', help='Answer yes to all questions')
-@cli.argument('--baseurl', default=default_base, help='The URL all git operations start from. Default: %s' % default_base)
-@cli.argument('-b', '--branch', default=default_branch, help='The branch to clone. Default: %s' % default_branch)
-@cli.argument('-H', '--home', default=Path(os.environ['QMK_HOME']), type=Path, help='The location for QMK Firmware. Default: %s' % os.environ['QMK_HOME'])
-@cli.argument('fork', default=default_fork, nargs='?', help='The qmk_firmware fork to clone. Default: %s' % default_fork)
+@cli.argument('--baseurl', arg_only=True, default=default_base, help='The URL all git operations start from. Default: %s' % default_base)
+@cli.argument('-b', '--branch', arg_only=True, default=default_branch, help='The branch to clone. Default: %s' % default_branch)
+@cli.argument('-H', '--home', arg_only=True, default=Path(os.environ['QMK_HOME']), type=Path, help='The location for QMK Firmware. Default: %s' % os.environ['QMK_HOME'])
+@cli.argument('fork', arg_only=True, default=default_fork, nargs='?', help='The qmk_firmware fork to clone. Default: %s' % default_fork)
 @cli.subcommand('Setup your computer for qmk_firmware.')
 def setup(cli):
     """Guide the user through setting up their QMK environment.
@@ -77,9 +77,9 @@ def setup(cli):
     else:
         cli.log.error('Could not find qmk_firmware!')
         if yesno(clone_prompt):
-            git_url = '/'.join((cli.config.setup.baseurl, cli.args.fork))
+            git_url = '/'.join((cli.args.baseurl, cli.args.fork))
 
-            if git_clone(git_url, cli.args.home, cli.config.setup.branch):
+            if git_clone(git_url, cli.args.home, cli.args.branch):
                 git_upstream(cli.args.home)
             else:
                 exit(1)