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While I have the computer to bits is it feasible to take of the logic board and take out the SSD or would that cause more problems
The Fusion SSD should be fairly accessible at this stage. Since you have everything taken apart you could just remove it from the system entirely, and get an enclosure or something for it as a fat ass thumb drive.
 
If I don’t remove the SSD from the logic board how can I stop the computer from trying to use it
 
If I don’t remove the SSD from the logic board how can I stop the computer from trying to use it
I'm sure there is something you can run in terminal that will disable it, but if you already have the whole thing taken apart, physically removing it will be your best bet.
 
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