No, just use the SSD as a OS +Program + most used data.
The SSD works best with Bios set to AHCI, which allows trim to be passed.
With SRT I think you need to set bios to Raid. Trim can still be passed with the bios set to Raid and the SSD is NOT a member drive of a raid configuration. When used as part of SRT I don't think trim is passed. This would affect the whole drive not just the 40 Gig SRT partition. Be aware that if you have a gigabyte z68 MB there have been some reported issues although I think then have been resolved.