I know this thread is a couple of years old but I have just started experiencing this problem as well. Did this get solved for any of those who were experiencing it?
Some background:
I recently changed computers from a MacBook Air to a new computer:
MacBook Pro (Retina, 15-inch, Mid 2015
Processor: 2.5GHz Quad-Core Intel Core i7
Memory: 16Gb 1600MHz DDR3
Graphics: Intel Iris Pro 1536 MB
I've made sure that all of my plug-ins have moved over properly with iLok, etc. Restarted my computer a few times. Disengaged plugins that I think might be causing problems in the Plug-in Manager, and to no avail.
This session isn't particularly big, it ran mostly fine on my other (less powerful) computer. Not a ton of automation either and no super fancy plug-ins (though there are 3rd party ones).
Here is a link to my SoundCloud with a clip of it happening:
https://soundcloud.com/aaron-feeney/audio-glitch-test/s-FzeFdYz2Pvf
Any tips??
Thanks
Aaron