Hi Dylan!
I'm sorry for the delay in my response. What I meant is that It's not neccesary to use a lot of scripts/sketches at the same time, let's say that you are going to run a script in the board using OpenCV and at the same time you are going to run a sketch made in the Arduino environment, I haven't done a project like the one you have in mind but I think you could use OpenCV without the sketch of the Arduino environment. I know that this means not using the .ino file from: Arduino Controlled Trainable Robotic Arm « Adafruit Industries – Makers, hackers, artists, designers and engineers! but you could do it. Just ideas, but I think that having the .ino file from the Adafruit's link it will be a good start and after you will see if you need another script/sketch to control other things. I hope this answers your question.
Kind Regards;
CMata