As bhaz indicated, the error message doesn’t seem to affect functionality, so for the moment I’ve disabled PHP error reporting using error_reporting(0); in the multisite-global-search.php script.
I’m experiencing the exact same problem after updating WP-MS to 3.6…
Warning: Missing argument 2 for wpdb::prepare(), called in /wp-content/plugins/multisite-global-search/inc/shortcodes.php on line 227 and defined in /wp-includes/wp-db.php on line 992
The error shows up on the search results page AND when I try to add/delete sites on the network.
THANK you!