Would it be OK to rename the wp-cron.php file (to, say, wp-croncron.php) and then invoke it (say, hourly) by crontab command?
Our site has been shut down twice by our host for CPU overuse due to wp-cron.php, and is only running now because we've promised to shut down the culprit WordPress-run portion. Unfortunately, it was our most popular feature, a daily compilation of news concerning our nonprofit's area of concern.
We run on a shoestring, but the frequent glitches of shared hosting seem to be problematic for wp-cron.php. So if it could be invoked in a more infrequent manner (once an hour instead of 3,000 times a minute), maybe we could avoid these CPU overuse problems.