How to silent ‘Attempting a database schema change is discouraged.’?

You can stop the Schema Change along with Direct Query and No Caching warnings in these two ways-

global $wpdb;
$wpdb->query( "DROP TABLE IF EXISTS {$wpdb->prefix}rest_of_the_name" ); // phpcs:ignore WordPress.DB.DirectDatabaseQuery.NoCaching, WordPress.DB.DirectDatabaseQuery.DirectQuery, WordPress.DB.DirectDatabaseQuery.SchemaChange

or

global $wpdb;
// @codingStandardsIgnoreStart
$wpdb->query( "DROP TABLE IF EXISTS {$wpdb->prefix}rest_of_the_name" );
// @codingStandardsIgnoreEnd

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