So after playing, testing and going through a 5 part tutorial to learn the SEM I've found a few issues while using it in standalone.
It will not remember to keep one of my controllers'( M-audio Radium 61[ Keystation Port 1] box checked in Preferences> Midi Devices and every time I start it up I have to check it's box. It would be nice if it would remember it. It remembers my Novation Remote Zero controller.
I can't use it with the Digi002R audio driver and sometimes it crashes when I try this. This forces me to use the Macs' built in Line output...luckily I have a speaker system for this but I wish I could play it through the Digi002R and hear it on my better sounding monitors.