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Jeff,
Great work!  I really like the bullet-proof solution this brings to the SCS unit.  Question for you concerning the new thermostat.  Is the CO1 & CO2 on your wiring diagram considered stag 1 and stage 2 as far as the new thermostat is concerned?

Thanks Steve, yes this should make things a bit more reliable. Not to mention I will carry a spare 24v transformer and one of each of the relays as a spare. I am also planning on getting a couple spares of each of the capacitors, I got pictures of them while I had the unit open. 
So yes, CO1 and CO2 are compressor 1 and compressor 2 which is stage 1 and stage 2 respectively. The thermostat is labeled Y1 (compressor 1/stage 1) and Y2 (compressor 2/stage 2) for those stages. I am going to update the wiring diagram with the wire colors that I used and the terminal information for the thermostat so its more accurate as to the actual install. 
Which as of yesterday worked just as it should, including changing the outdoor fan speed to high when compressor 2/stage 2 is called for by the thermostat and then going back to low when its only calling for compressor 1/stage 1.