I'm using these filters to clean the head of my theme:
remove_action('wp_head', 'wp_generator');
remove_action('wp_head', 'rsd_link');
remove_action('wp_head', 'feed_links', 2);
remove_action('wp_head', 'index_rel_link');
remove_action('wp_head', 'wlwmanifest_link');
remove_action('wp_head', 'feed_links_extra', 3);
remove_action('wp_head', 'start_post_rel_link', 10, 0);
remove_action('wp_head', 'parent_post_rel_link', 10, 0);
remove_action('wp_head', 'adjacent_posts_rel_link', 10, 0);
remove_action('wp_head', 'locale_stylesheet');
remove_action('wp_head', 'noindex');
remove_action('wp_head', 'wp_print_styles');
remove_action('wp_head', 'wp_print_head_scripts');
However, I can't seem to get rid of these:
<link rel='prev' title='Top Menu Item 1' href='http://localhost/test/test-prev.html' />
<link rel='next' title='Internal title test default title' href='http://localhost/test/text-next.html' />
<link rel='shortlink' href='http://localhost/test/?p=528' />
wp_print_styles
orwp_print_head_scripts
. A lot of plugins are going to rely on those to enqueue styles and scripts. Your theme will probably be enqueuing its own styles and scripts as well.