That's not the way to think of it, that CR A=X 1/4 mile times, CR B=Y 1/4 mile times, and that CR C=Z 1/4 times.
You want a compression ratio that works with your cams, so they can create power at their maximum ability.
You need to set a HP goal, choose the cams that are large enough to meet that goal, as well as sizing all other parts to meet that goal; the intake, header, exhaust, TB, IM are of main importance.
You should overbore the cylinders to create a fresh cylinder wall surface, so the new piston rings can seal properly, that's really important. Are you talking about a simple overbore of .25mm's, or going much bigger, like 4mm's?
Keep in mind that 12.5:1 is about the maximum you can go and still run on pump gas. Do you have 93 octane where you live?
I don't know anything about Skunk2 Pro Stage 2's. Can you put up a link.
I don't think trying to create an all motor engine that run's 12's is realistic for a DD. Getting into the 13's is tough enough for a DD.