Your original workout seemed fine for the rep day. I don't think there's a big deal between box squats or Olympic squats, either is fine, and switching is cool also.
The thing I like about this template is that there is a lot of room to maneuver. Once you get a feel for it, you can swtich things in and out, depending what you are aiming for (I tend to do a lot of back work, especially on my lower back, as I feel that's a weakness for me). You'll get the hang of it.