It's very challenging to comprehensively study whats going on in the mitochondria in response to exercise, so keep in mind when most studies talk about any aspect of mitochondrial function, volume, whatever, they are often just looking at some of proxy for these in a form of a particular mitochondrial enzyme or membrane protein.
When it comes to the idea that too much quality running and not enough easy running leads to mitochondrial damage there's some evidence that could support this and a few working models of what's going on, but nothing super solid to my knowledge. A ramble on a few concepts:
One theory is that too much intense exercise leads to an overproduction of reactive oxygen species overwhelms the antioxidative capacity of the mitochondria to deal with these ROS. I'm not sure if the result here is actual damage to the mitochondria or just a compensatory shutdown of metabolism (and thus production of ROS) so that they can get back to a more balanced redox environment.
Another possibility is an imbalance in substrate utilization with too much intensity. I seem to recall some studies that have found disturbed glucose control and insulin sensitivity issues in elite athletes training very hard. Not sure of the exact implications here.
Another theory is less about dose/damage of high intensity itself and more about what we're not doing during this type of training. If we drop overall volume and threshold work we just lose aerobic capacity over time -pretty simple.
I like to think of the mitochondria less as machine-like powerhouses that we should constantly push to the limit, and more like microscopic livestock that we need to cultivate and take care of. Training serves to "feed" them. We need to feed them the right balance of stuff and should not abuse them. Not the best analogy but I think there's something here.
I'm not sure if easy running is actively "protective" against mitochondrial damage/dysregulation or if its more just a general balancing of training effects.
That being said, a short easy run is a nice boost of hormones and blood flow that aids in recovery and adaptation. For a high volume athlete who is very fit and very durable they can add in a daily jog to get these recovery benefits without a recovery cost. For a normal runner something like an easy walk or bike ride in the morning would probably get the job done and be safer.
Going into less understood and maybe somewhat woo woo territory now, I think an important aspect of successful training is not only getting the correct training load, but balancing time between heightened, ready-to-perform, sympathetic nervous system state and the chill rebuild parasympathetic nervous system state. If we are doing much intensity we are always in ready-to-perform mode and not getting to fully rebuild from all that stress. Easy running gets/keeps us in that chill mode where actual adaptation takes place.
There's plenty more models/theories/whatever about this, and ultimately not sure it really matters how we describe whats going on in the mitochondria. We have a pretty good idea of what works from all the coaches and athletes running real world experiments. The best consistently run a lot and run most that fairly easy. I don't think we need to a deep understanding of cellular biology to tell us to follow the obvious path here.