For the most part, the project is complete. There are a few coding tweaks that I might make. For instance that the OK to wake time is changes based upon the day of the week (later on weekends and earlier during the week).
Overall, I like the enclosure but I am only about 90% happy with it for this application. It is really tight fitting everything in there. I wanted to put some buttons on the top to be able to change the time but there just wasn't enough room. The bi-color matrix is a little too big for the opening and I couldn't get it to line up properly to when connected to the protoboard. I will probably make some sort of front panel cover to make it a little more kid friendly and to hide the very slight gap for the matrix and the opening.
The project used: Arduino Uno, chrono dot, bi-color matrix, RGB LCD display, Protoshield PCB, and Arduino enclosure