Your reasoning is sound, however, many others reason, that since the parity disks usually fill up more quickly than the data disks, the space on the parity disk is more valuable than on the data disks. Therefore the content files should be placed on the data disks, rather than the parity disks IF you value data space. If not, placing them on the parity disks is perfectly allowed (see 6th paragraph of section "4 Getting Started" of the SnapRAID Manual.
I haven't encounterd this problem, yet, but I see it. Especially for larger SnapRAID...
Are the 3x3TB drives filled to the brim? If not you could just copy the data from...