There is some sort of switch between the algorythms every 10 seconds or so that changes the phase. As it is a computer in the core, I think it can be set to a single one to make life easier but I'll have to research / contact the support to confirm that.
As I've said, it is not deadly at all onstage and for youtube videos and the like. Well, especially youtube videos that are watched many times on phones and the like that sounds like **** anyway.
For recording an album I would not use it for laying rhythm tracks (for solos, I think maybe), the normal L/R tracks recorded separately is the way to go there.
I'd surely keep the option of tracking with AMT pedals as they are quick and I prefer their response to any amp sim plug-in running on my computer but I record line guitars as well anyway so before mixing I'll run/reamp the signal through the big rig the traditional way using microphones, preamps compressors e.t.c. During all the mixing crapola, I usually include the AMT track as a layer this way or an another.