The whole point of rip cleaning is preserving bacteria.
We remove all the detritus, algae, aptaisa, etc from the rocks very carefully making sure to keep the bacteria in the rocks alive. This is where 80%+ of our good bacteria live.
We sacrifice the small amount (<20%) in the sand bed in order to not deal with the detritus there.
Rip Cleaning gives you clean glass, clean sand,clean water, and rocks with much less algae or other baddies.
In my case I never saw ammonia and my Nitrite was never more than 0.1ppm.
I upgraded tanks and for the month after my tank never looked better. Since I've had a few strands of GHA but it is being dealt with by bumping up my CUC (needed after the upgrade anyways)
In summary rip cleaning is getting rid of as much detritus and bad stuff while saving as much bacteria as possible leaving you with a clean but cycled tank.