I think it may well work. I've short stroked hard drives and put them in RAID 0 before, and formated the remaining space as another partition.
I'm assuming you're using Intel Matrix Storage. Format two drives as RAID 1 with size of the smallest drive. Then in either in Windows disk management or using something like Gparted, you should be able to see the remaining 'unallocated space' and create a drive out of it.