I am also having headaches with V 4.3 including the Internal Server Error when I tried to reply to a comment. After troubleshooting, I found it was Google’s P3 (Plugin Performance Profiler) plugin causing the trouble. But I still cannot delete comments I don’t want. Though I delete them, the same comment comes back.
I disabled wp-cron.php by adding code in wp-config.php
define(‘DISABLE_WP_CRON’, true);
Then I manually set up a cron job in cpanel to execute wp-cron.php every 6 hours.
The problem of duplicate emails seems to be resolved! The problem has something to do with wp-cron or how WordPress executes it?
I have the same problem. I do hope it gets fixed soon!