are you going to plumb the frag tank into an existing system? i would say one con would be a possible mini cycle which could mean possible bacteria and algae blooms.
This will be a stand alone system that will have a cycle. I am going to be using a 28g nano cube and I was thinking of putting rock rubble in the back chamber or us some 2-3" pieces and line the bottom of the tank. I have a return that is ran down the back bottom of the tank and basically a spray bar on the bottom now. The rock would be under the frag rack so I would have some crabs down there that could eat the left over food.
Im changing to a bare bottom frag system. I heard that it causes more nitrate in the water, but as long as you have a nitrate reactor or a refugium, it will balance out. I use to have sand but the sand would always get on the corals each time I stick my hand in and grab something near a fan.
I went BB with my frag tank, cause I was tired of my frags getting covered with sand and I wanted high flow in it without having to worry about blowing the sand everywhere.
No, it will not add CA to your system like it would in a CA reactor set-up with CO2 melting it. I just prefer the look and functionality of it is all. I'll try and post a pic later.
I run sand in my frag tank as i can place encrutsing corals on it to spread and grow flat for easy propagation. adding dry sand to a tank will not cause a mini cycle if it is rinsed well first will ro di water. even if not it would not cause a cycle but could release phosphate causing an algae bloom. you can only cause a cycle by killing/removing current bacteria.