This.
My personal experience (which includes a lovely meniscus blowout during squats) is that even given perfect form, once you get up to heavy weights (2x-3x bodyweight for deads and squats) you are starting to push the limits of your body and need to realize that occasional injury is part of the total picture.
That said, I still stay away from machines. I feel even if you're working with light weights, the balance factor of free weights adds so much more to the workout.
Either way, the article completely glosses over the "oh, by the way if you do this wrong you will ruin your shit" aspect of squats and deadlifts, which is a pretty compelling argument for machines in my book.