Yes. It won't have the necessary drivers to boot. How big a problem this is depends on your motherboard and Windows version.
Does it have two or more SATA controllers? If it does the job is pretty simple as it already has drivers loaded for both controllers. Switch your SSD to a port on the secondary controller (third party). Change your primary controller (chipset) to RAID (leaving third party settings alone) and boot. Your SSD now on the secondary controller should boot properly. Once it is booted Windows should now see a new controller (RAID) and install the drivers automatically.
Now you can leave the SSD on the secondary controller or shutdown and move it back to the primary as a single drive. Then you can use the chipset RAID...