diff --git a/lib/boxen.rb b/lib/boxen.rb
index e722465..bc84e33 100644
--- a/lib/boxen.rb
+++ b/lib/boxen.rb
@@ -1,3 +1,6 @@
+require "boxen/config"
+require "boxen/flags"
+
 module Boxen
 
   # Is Boxen active?
@@ -6,6 +9,40 @@ module Boxen
     ENV.include? "BOXEN_HOME"
   end
 
+  # Run Boxen by wiring together the command-line flags, config,
+  # preflights, Puppet execution, and postflights. Returns Puppet's
+  # exit code.
+
+  def self.run *args
+    config = Boxen::Config.load
+    flags  = Boxen::Flags.new args
+
+    # Apply command-line flags to the config in case we're changing or
+    # overriding anything.
+
+    flags.apply config
+
+    # Run the preflight checks.
+
+    #Boxen::Preflight.run config
+
+    # Save the config for Puppet (and next time).
+
+    #Boxen::Config.save config
+
+    # Make the magic happen.
+
+    code = 0#Boxen::CLI.new(config, flags).run
+
+    # Run the postflight checks.
+
+    #Boxen::Postflight.run config
+
+    p :config => config
+
+    return code
+  end
+
   # Run `args` as a system command with sudo if necessary.
 
   def self.sudo *args
diff --git a/lib/boxen/flags.rb b/lib/boxen/flags.rb
index 01c304b..06c9a42 100644
--- a/lib/boxen/flags.rb
+++ b/lib/boxen/flags.rb
@@ -94,7 +94,7 @@ module Boxen
         end
       end
 
-      parse args
+      parse args.flatten.compact
     end
 
     # Apply these flags to `config`. Returns `config`.