I made a dupe of this thread (sorry about that) but I’ve found the exact same thing across multiple projects and channel types.
Using Cloner everything is ok, but the moment it’s bypassed the audio plays back way out of sync.
This doesn’t happen with any other plugin that I’m aware of.
This means using automation to bypass the effect in certain sections of the song (exactly what I’m trying to do) is completely unusable.
I’m using OS X 10.12.6 with Cubase 10.0.15.