auto-upgrade.php

<?php

class WMR_Auto_Upgrade {

	public $whitelisted_plugins = array(
		'akismet',
		'customizer-everywhere',
		'dependency-minification',
		'jetpack',
		'media-placeholders',
		'posts-to-posts',
		'safe-redirect-manager',
		'stream',
	);

	function __construct() {
		add_filter( 'automatic_updates_is_vcs_checkout', '__return_false', 1 );
		define( 'WP_AUTO_UPDATE_CORE', true );
		add_filter( 'auto_update_plugin', array( $this, 'auto_update_plugin' ), 10, 2 );
	}

	/**
	 * @param $update
	 * @param $item
	 *
	 * @return bool
	 */
	function auto_update_plugin( $update, $item ) {
		if ( in_array( $item->slug, $this->whitelisted_plugins ) ) {
			$update = true;
		}
		return $update;
	}

}

$wmr_auto_upgrade = new WMR_Auto_Upgrade();