diff --git a/src/Application.php b/src/Application.php
index eab28e0818..898cf32484 100644
--- a/src/Application.php
+++ b/src/Application.php
@@ -30,7 +30,7 @@ public function __construct($name, $version)
         //   --alias-path
         //   --local
         //
-        // Global options registerd with Symfony:
+        // Global options registered with Symfony:
         //
         //   --remote-host
         //   --remote-user
@@ -43,6 +43,10 @@ public function __construct($name, $version)
         //   --verbose / -v
         //   --help
         //   --quiet
+        //   --debug / -d : equivalent to -vv
+        //   --yes / -y : equivalent to --no-interaction
+        //   --nocolor  : equivalent to --no-ansi
+        //
         //
         // No longer supported
         //
@@ -54,15 +58,13 @@ public function __construct($name, $version)
         //   --strict            Not supported by Symfony
         //   --interactive       If command isn't -n, then it is interactive
         //   --command-specific  Now handled by consolidation/config component
-        //
+        //   --php               If needed prefix command with PATH=/path/to/php:$PATH. Also see #env_vars in site aliases.
+        //   --php-options
+        //   --pipe
         // Not handled yet (to be implemented):
         //
-        //   --debug / -d
+
         //   --uri / -l
-        //   --yes / -y
-        //   --pipe
-        //   --php
-        //   --php-options
         //   --tty
         //   --exclude
         //   --backend
@@ -70,7 +72,6 @@ public function __construct($name, $version)
         //   --ignored-modules
         //   --no-label
         //   --label-separator
-        //   --nocolor
         //   --cache-default-class
         //   --cache-class-<bin>
         //   --confirm-rollback
@@ -86,6 +87,17 @@ public function __construct($name, $version)
         //   --path-aliases
         //   --ssh-options
 
+
+        $this->getDefinition()
+            ->addOption(
+                new InputOption('--debug', 'd', InputOption::VALUE_NONE, 'Equivalent to -vv')
+            );
+
+        $this->getDefinition()
+            ->addOption(
+                new InputOption('--yes', 'y', InputOption::VALUE_NONE, 'Equivalent to --no-interaction.')
+            );
+
         $this->getDefinition()
             ->addOption(
                 new InputOption('--remote-host', null, InputOption::VALUE_REQUIRED, 'Run on a remote server.')
diff --git a/src/Commands/DrushCommands.php b/src/Commands/DrushCommands.php
index 5f5df1e553..2ce92ad301 100644
--- a/src/Commands/DrushCommands.php
+++ b/src/Commands/DrushCommands.php
@@ -1,5 +1,4 @@
 <?php
-
 namespace Drush\Commands;
 
 use Drush\Style\DrushStyle;
@@ -51,26 +50,21 @@ protected function io()
      */
     public static function printFile($file)
     {
-        // Don't even bother to print the file in --no mode
-        if (drush_get_context('DRUSH_NEGATIVE')) {
-            return;
-        }
+
         if ((substr($file, -4) == ".htm") || (substr($file, -5) == ".html")) {
             $tmp_file = drush_tempnam(basename($file));
             file_put_contents($tmp_file, drush_html_to_text(file_get_contents($file)));
             $file = $tmp_file;
         }
-        // Do not wait for user input in --yes or --pipe modes
-        if (drush_get_context('DRUSH_PIPE')) {
-            drush_print_pipe(file_get_contents($file));
-        } elseif (drush_get_context('DRUSH_AFFIRMATIVE')) {
-            drush_print(file_get_contents($file));
-        } elseif (drush_shell_exec_interactive("less %s", $file)) {
-            return;
-        } elseif (drush_shell_exec_interactive("more %s", $file)) {
-            return;
-        } else {
-            drush_print(file_get_contents($file));
+
+        if (self::input()->isInteractive()) {
+            if (drush_shell_exec_interactive("less %s", $file)) {
+                return;
+            } elseif (drush_shell_exec_interactive("more %s", $file)) {
+                return;
+            } else {
+                drush_print(file_get_contents($file));
+            }
         }
     }
 }
diff --git a/src/Commands/core/DrupliconCommands.php b/src/Commands/core/DrupliconCommands.php
index 348a3a585f..e467ed2de6 100644
--- a/src/Commands/core/DrupliconCommands.php
+++ b/src/Commands/core/DrupliconCommands.php
@@ -28,7 +28,7 @@ public function druplicon($result, CommandData $commandData)
         $this->printed = true;
         $annotationData = $commandData->annotationData();
         $commandName = $annotationData['command'];
-        if ($commandData->input()->getOption('druplicon')) {
+        if ($commandData->input()->hasOption('druplicon') && $commandData->input()->getOption('druplicon')) {
             $this->logger()->debug(dt('Displaying Druplicon for "!command" command.', array('!command' => $commandName)));
             $misc_dir = DRUSH_BASE_PATH . '/misc';
             if (drush_get_context('DRUSH_NOCOLOR')) {
diff --git a/src/Commands/core/EditCommands.php b/src/Commands/core/EditCommands.php
index da4ea1e23e..141689f186 100644
--- a/src/Commands/core/EditCommands.php
+++ b/src/Commands/core/EditCommands.php
@@ -2,6 +2,7 @@
 namespace Drush\Commands\core;
 
 use Drush\Commands\DrushCommands;
+use Drush\Drush;
 
 class EditCommands extends DrushCommands
 {
@@ -84,7 +85,7 @@ public function load($headers = true)
                 $aliases_header = array('aliases' => '-- Aliases --');
             }
         }
-        if ($site_root = drush_get_context('DRUSH_DRUPAL_SITE_ROOT')) {
+        if ($site_root = Drush::bootstrap()->confPath()) {
             $path = realpath($site_root . '/settings.php');
             $drupal[$path] = $path;
             if (file_exists($site_root . '/settings.local.php')) {
diff --git a/src/Commands/core/NotifyCommands.php b/src/Commands/core/NotifyCommands.php
index a531e9fd6e..522cbfc7ca 100644
--- a/src/Commands/core/NotifyCommands.php
+++ b/src/Commands/core/NotifyCommands.php
@@ -39,19 +39,15 @@ public function registerShutdown(CommandData $commandData)
 
     public function shutdown(CommandData $commandData)
     {
-        $cmd = $commandData->input()->getFirstArgument();
+
+        $input = $commandData->input();
+        $cmd = $input->getFirstArgument();
 
         if (empty($cmd)) {
             return;
         }
 
-        // pm-download handles its own notification.
-        if ($cmd != 'pm-download' && self::isAllowed($commandData)) {
-            $msg = $commandData->annotationData()->get('notify', dt("Command '!command' completed.", array('!command' => $cmd)));
-            $this->shutdownSend($msg, $commandData);
-        }
-
-        if ($commandData->input()->getOption('notify') && drush_get_error()) {
+        if ($input->hasOption('notify') && $input->getOption('notify') && drush_get_error()) {
             // If the only error is that notify failed, do not try to notify again.
             $log = drush_get_error_log();
             if (count($log) == 1 && array_key_exists('NOTIFY_COMMAND_NOT_FOUND', $log)) {
diff --git a/src/Commands/core/RsyncCommands.php b/src/Commands/core/RsyncCommands.php
index 12b09202be..bf4b2c936b 100644
--- a/src/Commands/core/RsyncCommands.php
+++ b/src/Commands/core/RsyncCommands.php
@@ -80,7 +80,7 @@ public function rsyncOptions($options)
         }
 
         $mode = '-'. $options['mode'];
-        if (drush_get_context('DRUSH_VERBOSE')) {
+        if ($this->io()->isVerbose()) {
             $mode .= 'v';
             $verbose = ' --stats --progress';
         }
diff --git a/src/Commands/core/SiteCommands.php b/src/Commands/core/SiteCommands.php
index b8eed5f9b9..2703a47497 100644
--- a/src/Commands/core/SiteCommands.php
+++ b/src/Commands/core/SiteCommands.php
@@ -3,6 +3,7 @@
 
 use Drush\Commands\DrushCommands;
 
+use Drush\Drush;
 use Drush\SiteAlias\SiteAliasManagerAwareInterface;
 use Drush\SiteAlias\SiteAliasManagerAwareTrait;
 use Drush\SiteAlias\SiteAliasName;
@@ -219,7 +220,7 @@ public static function siteAliasList()
     public static function siteSiteList()
     {
         $site_list = array();
-        $base_path = drush_get_context('DRUSH_DRUPAL_ROOT');
+        $base_path = Drush::bootstrapManager()->getRoot();
         if ($base_path) {
             $base_path .= '/sites';
             $files = drush_scan_directory($base_path, '/settings\.php/', array('.', '..', 'CVS', 'all'), 0, 1);
diff --git a/src/Commands/core/StatusCommands.php b/src/Commands/core/StatusCommands.php
index b819912def..b8b69ecb97 100644
--- a/src/Commands/core/StatusCommands.php
+++ b/src/Commands/core/StatusCommands.php
@@ -5,6 +5,7 @@
 use Consolidation\OutputFormatters\StructuredData\PropertyList;
 use Drupal\Core\StreamWrapper\PrivateStream;
 use Drupal\Core\StreamWrapper\PublicStream;
+use Drush\Boot\BootstrapManager;
 use Drush\Commands\DrushCommands;
 use Drush\Drush;
 use Drush\Sql\SqlBase;
@@ -17,7 +18,7 @@ class StatusCommands extends DrushCommands
     /**
      * @command core-status
      * @param $filter A field to filter on. @deprecated - use --field option instead.
-     * @option project A comma delimited list of projects. their paths will be added to path-aliases section.
+     * @option project A comma delimited list of projects. Their paths will be added to path-aliases section.
      * @aliases status, st
      *n
      * @table-style compact
@@ -77,15 +78,16 @@ public function status($filter = '', $options = ['project' => '', 'format' => 't
 
     public static function getPropertyList($options)
     {
-        $phase = drush_get_context('DRUSH_BOOTSTRAP_PHASE');
-        if ($drupal_root = drush_get_context('DRUSH_DRUPAL_ROOT')) {
+        $boot_manager = Drush::bootstrapManager();
+        $boot_object = Drush::bootstrap();
+        if ($drupal_root = $boot_manager->getRoot()) {
             $status_table['drupal-version'] = drush_drupal_version();
-            $boot_object = Drush::bootstrap();
             $conf_dir = $boot_object->confPath();
             $settings_file = "$conf_dir/settings.php";
             $status_table['drupal-settings-file'] = file_exists($settings_file) ? $settings_file : '';
-            if ($site_root = drush_get_context('DRUSH_DRUPAL_SITE_ROOT')) {
-                $status_table['uri'] = drush_get_context('DRUSH_URI');
+            if ($boot_manager->hasBootstrapped(DRUSH_BOOTSTRAP_DRUPAL_SITE)) {
+                // @todo for some reason getUri() is returning null.
+                $status_table['uri'] = $boot_manager->getUri();
                 try {
                     $sql = SqlBase::create($options);
                     $db_spec = $sql->getDbSpec();
@@ -99,11 +101,11 @@ public static function getPropertyList($options)
                     $status_table['db-password'] = isset($db_spec['password']) ? $db_spec['password'] : null;
                     $status_table['db-name'] = isset($db_spec['database']) ? $db_spec['database'] : null;
                     $status_table['db-port'] = isset($db_spec['port']) ? $db_spec['port'] : null;
-                    if ($phase > DRUSH_BOOTSTRAP_DRUPAL_CONFIGURATION) {
+                    if ($boot_manager->hasBootstrapped(DRUSH_BOOTSTRAP_DRUPAL_CONFIGURATION)) {
                         $status_table['install-profile'] = $boot_object->getProfile();
-                        if ($phase > DRUSH_BOOTSTRAP_DRUPAL_DATABASE) {
+                        if ($boot_manager->hasBootstrapped(DRUSH_BOOTSTRAP_DRUPAL_DATABASE)) {
                             $status_table['db-status'] = dt('Connected');
-                            if ($phase >= DRUSH_BOOTSTRAP_DRUPAL_FULL) {
+                            if ($boot_manager->hasBootstrapped(DRUSH_BOOTSTRAP_DRUPAL_FULL)) {
                                 $status_table['bootstrap'] = dt('Successful');
                             }
                         }
@@ -112,7 +114,7 @@ public static function getPropertyList($options)
                     // Don't worry be happy.
                 }
             }
-            if (drush_has_boostrapped(DRUSH_BOOTSTRAP_DRUPAL_FULL)) {
+            if ($boot_manager->hasBootstrapped(DRUSH_BOOTSTRAP_DRUPAL_FULL)) {
                 $status_table['theme'] = \Drupal::config('system.theme')->get('default');
                 $status_table['admin-theme'] = $theme = \Drupal::config('system.theme')->get('admin') ?: 'seven';
             }
@@ -129,7 +131,7 @@ public static function getPropertyList($options)
         $alias_files = _drush_sitealias_find_alias_files();
         $status_table['drush-alias-files'] = $alias_files;
 
-        $paths = self::pathAliases($options);
+        $paths = self::pathAliases($options, $boot_manager, $boot_object);
         if (!empty($paths)) {
             foreach ($paths as $target => $one_path) {
                 $name = $target;
@@ -168,38 +170,42 @@ public function adjustStatusOptions(CommandData $commandData)
         }
     }
 
-    public static function pathAliases($options)
+    /**
+     * @param array $options
+     * @param BootstrapManager $boot_manager
+     * @return array
+     */
+    public static function pathAliases(array $options, BootstrapManager $boot_manager, $boot)
     {
         $paths = array();
         $site_wide = 'sites/all';
-        $boot = Drush::bootstrap();
-        if ($drupal_root = drush_get_context('DRUSH_DRUPAL_ROOT')) {
+        if ($drupal_root = $boot_manager->getRoot()) {
             $paths['%root'] = $drupal_root;
-            if ($site_root = drush_get_context('DRUSH_DRUPAL_SITE_ROOT')) {
+            if ($site_root = $boot->confPath()) {
                 $paths['%site'] = $site_root;
-                if (is_dir($modules_path = $boot->confPath() . '/modules')) {
+                if (is_dir($modules_path = $site_root . '/modules')) {
                     $paths['%modules'] = $modules_path;
                 } else {
                     $paths['%modules'] = ltrim($site_wide . '/modules', '/');
                 }
-                if (is_dir($themes_path = $boot->confPath() . '/themes')) {
+                if (is_dir($themes_path = $site_root . '/themes')) {
                     $paths['%themes'] = $themes_path;
                 } else {
                     $paths['%themes'] = ltrim($site_wide . '/themes', '/');
                 }
-                if (drush_has_boostrapped(DRUSH_BOOTSTRAP_DRUPAL_CONFIGURATION)) {
+                if ($boot_manager->hasBootstrapped(DRUSH_BOOTSTRAP_DRUPAL_CONFIGURATION)) {
                     try {
                         if (isset($GLOBALS['config_directories'])) {
                             foreach ($GLOBALS['config_directories'] as $label => $unused) {
                                 $paths["%config-$label"] = config_get_config_directory($label);
                             }
                         }
-                    } catch (Exception $e) {
+                    } catch (\Exception $e) {
                         // Nothing to do.
                     }
                 }
 
-                if (drush_has_boostrapped(DRUSH_BOOTSTRAP_DRUPAL_FULL)) {
+                if ($boot_manager->hasBootstrapped(DRUSH_BOOTSTRAP_DRUPAL_FULL)) {
                     $paths['%files'] = PublicStream::basePath();
                     $paths['%temp'] = file_directory_temp();
                     if ($private_path = PrivateStream::basePath()) {
diff --git a/src/Commands/core/XhprofCommands.php b/src/Commands/core/XhprofCommands.php
index b36de160de..bbf87b7a26 100644
--- a/src/Commands/core/XhprofCommands.php
+++ b/src/Commands/core/XhprofCommands.php
@@ -64,7 +64,7 @@ public function xhprofInitialize(InputInterface $input, AnnotationData $annotati
 
     public static function xhprofIsEnabled(InputInterface $input)
     {
-        if ($input->getOption('xh-link')) {
+        if ($input->hasOption('xh-link') && $input->getOption('xh-link')) {
             if (!extension_loaded('xhprof') && !extension_loaded('tideways')) {
                 throw new \Exception(dt('You must enable the xhprof or tideways PHP extensions in your CLI PHP in order to profile.'));
             }
diff --git a/src/Commands/help/HelpCommands.php b/src/Commands/help/HelpCommands.php
index 9817ad829a..ef7738efac 100644
--- a/src/Commands/help/HelpCommands.php
+++ b/src/Commands/help/HelpCommands.php
@@ -13,7 +13,7 @@ class HelpCommands extends DrushCommands
      * Display usage details for a command.
      *
      * @command help
-     * @param $name A command name
+     * @param $command_name A command name
      * @usage drush help pm-uninstall
      *   Show help for a command.
      * @usage drush help pmu
@@ -27,10 +27,10 @@ class HelpCommands extends DrushCommands
      *
      * @return \Consolidation\AnnotatedCommand\Help\HelpDocument
      */
-    public function help($name, $options = ['format' => 'helpcli', 'include-field-labels' => false, 'table-style' => 'compact'])
+    public function help($command_name, $options = ['format' => 'helpcli', 'include-field-labels' => false, 'table-style' => 'compact'])
     {
         $application = Drush::getApplication();
-        $command = $application->get($name);
+        $command = $application->get($command_name);
         if ($command instanceof AnnotatedCommand) {
             $command->optionsHook();
         }
@@ -49,7 +49,7 @@ public function help($name, $options = ['format' => 'helpcli', 'include-field-la
      */
     public function validate(CommandData $commandData)
     {
-        $name = $commandData->input()->getArgument('name');
+        $name = $commandData->input()->getArgument('command_name');
         if (empty($name)) {
             throw new \Exception(dt("The help command requires that a command name be provided. Run `drush list` to see a list of available commands."));
         } else {
diff --git a/src/Commands/help/ListCommands.php b/src/Commands/help/ListCommands.php
index 5cefbe6cd8..f892cef744 100644
--- a/src/Commands/help/ListCommands.php
+++ b/src/Commands/help/ListCommands.php
@@ -30,7 +30,7 @@ class ListCommands extends DrushCommands
      *
      * @return \DOMDocument
      */
-    public function helpList($filter, $options = ['format' => 'listcli', 'raw' => false, 'filter' => null])
+    public function helpList($filter = null, $options = ['format' => 'listcli', 'raw' => false, 'filter' => null])
     {
         $application = Drush::getApplication();
         annotation_adapter_add_legacy_commands_to_application($application);
@@ -123,32 +123,6 @@ public static function renderListCLI($application, $namespaced, $output, $preamb
         ->writeln($preamble);
         $output->writeln('');
 
-        // For now ,this table does not need TableFormatter.
-        $table = new Table($output);
-        $table->setStyle('compact');
-        $global_options_help = drush_get_global_options(true);
-        $options = $application->getDefinition()->getOptions();
-        // Only display this table for Drush help, not 'generate' command.
-        if ($application->getName() == 'Drush Commandline Tool') {
-            $table->addRow([new TableCell('Global options. See `drush topic core-global-options` for the full list.', array('colspan' => 2))]);
-            foreach ($global_options_help as $key => $help) {
-                $data = [
-                    'name' => '--' . $options[$key]->getName(),
-                    'description' => $help['description'],
-                    // Not using $options[$key]->getDescription() as description is too long for -v
-                    'accept_value' => $options[$key]->acceptValue(),
-                    'is_value_required' => $options[$key]->isValueRequired(),
-                    'shortcut' => $options[$key]->getShortcut(),
-                ];
-                $table->addRow([
-                    HelpCLIFormatter::formatOptionKeys($data),
-                    HelpCLIFormatter::formatOptionDescription($data)
-                ]);
-            }
-            $table->addRow(['', '']);
-            $table->render();
-        }
-
         $rows[] = ['Available commands:', ''];
         foreach ($namespaced as $namespace => $list) {
             $rows[] = [$namespace . ':', ''];
diff --git a/src/Drupal/Commands/core/CliCommands.php b/src/Drupal/Commands/core/CliCommands.php
index 25991feec0..54c376463e 100644
--- a/src/Drupal/Commands/core/CliCommands.php
+++ b/src/Drupal/Commands/core/CliCommands.php
@@ -9,12 +9,16 @@
 use Drush\Psysh\DrushHelpCommand;
 use Drupal\Component\Assertion\Handle;
 use Drush\Psysh\Shell;
+use Drush\SiteAlias\SiteAliasManagerAwareInterface;
+use Drush\SiteAlias\SiteAliasManagerAwareTrait;
 use Psy\Configuration;
 use Psy\VersionUpdater\Checker;
 
-class CliCommands extends DrushCommands
+class CliCommands extends DrushCommands implements SiteAliasManagerAwareInterface
 {
 
+    use SiteAliasManagerAwareTrait;
+
     /**
      * Drush's PHP Shell.
      *
@@ -180,7 +184,7 @@ protected function historyPath(array $options)
             if ($site_name) {
                 $site_suffix = $site_name;
             } else {
-                $drupal_root = drush_get_context('DRUSH_DRUPAL_ROOT');
+                $drupal_root = Drush::bootstrapManager()->getRoot();
                 $site_suffix = md5($drupal_root);
             }
 
@@ -190,7 +194,7 @@ protected function historyPath(array $options)
         $full_path = "$cli_directory/$file_name";
 
         // Output the history path if verbose is enabled.
-        if (drush_get_context('DRUSH_VERBOSE')) {
+        if ($this->io()->isVerbose()) {
             $this->logger()->log(LogLevel::SUCCESS, dt('History: @full_path', ['@full_path' => $full_path]));
         }
 
diff --git a/src/Drupal/Commands/core/DrupalCommands.php b/src/Drupal/Commands/core/DrupalCommands.php
index c69738ae69..ea735bb76b 100644
--- a/src/Drupal/Commands/core/DrupalCommands.php
+++ b/src/Drupal/Commands/core/DrupalCommands.php
@@ -6,6 +6,7 @@
 use Drupal\Core\Extension\ModuleHandlerInterface;
 use Drush\Commands\DrushCommands;
 use Drush\Drupal\DrupalUtil;
+use Drush\Drush;
 
 class DrupalCommands extends DrushCommands
 {
@@ -89,7 +90,7 @@ public function twigCompile()
 
         foreach ($searchpaths as $searchpath) {
             foreach ($file = drush_scan_directory($searchpath, '/\.html.twig/', array('tests')) as $file) {
-                $relative = str_replace(drush_get_context('DRUSH_DRUPAL_ROOT') . '/', '', $file->filename);
+                $relative = str_replace(Drush::bootstrapManager()->getRoot() . '/', '', $file->filename);
                 // @todo Dynamically disable twig debugging since there is no good info there anyway.
                 twig_render_template($relative, array('theme_hook_original' => ''));
                 $this->logger()
diff --git a/src/Preflight/Preflight.php b/src/Preflight/Preflight.php
index d9e67c8ba3..becd8f2b6f 100644
--- a/src/Preflight/Preflight.php
+++ b/src/Preflight/Preflight.php
@@ -201,11 +201,6 @@ protected function doRun($argv)
         $discovery = $this->commandDiscovery();
         $commandClasses = $discovery->discover($searchpath, '\Drush');
 
-        // For now: use Symfony's built-in help, as Drush's version
-        // assumes we are using the legacy Drush dispatcher.
-        unset($commandClasses[dirname(__DIR__) . '/Commands/help/HelpCommands.php']);
-        unset($commandClasses[dirname(__DIR__) . '/Commands/help/ListCommands.php']);
-
         // Use the robo runner to register commands with Symfony application.
         $runner = new \Robo\Runner();
         $runner->registerCommandClasses($application, $commandClasses);
diff --git a/src/Style/DrushStyle.php b/src/Style/DrushStyle.php
index c99399f35b..ff12e83f27 100644
--- a/src/Style/DrushStyle.php
+++ b/src/Style/DrushStyle.php
@@ -26,20 +26,4 @@ public function choice($question, array $choices, $default = null)
             return array_search($return, $choices);
         }
     }
-
-    public function confirm($question, $default = true)
-    {
-        // Automatically accept confirmations if the --yes argument was supplied.
-        if (drush_get_context('DRUSH_AFFIRMATIVE')) {
-            $this->comment($question . ': yes.');
-            return true;
-        } // Automatically cancel confirmations if the --no argument was supplied.
-        elseif (drush_get_context('DRUSH_NEGATIVE')) {
-            $this->warning($question . ': no.');
-            return false;
-        }
-
-        $return = parent::confirm($question, $default);
-        return $return;
-    }
 }