Ok, I'm slightly confused now with this whole alignment thing.
Here's what I've observed so far.
1) The Intel SSD on my laptop is properly aligned and it was created by doing a fresh install of Win7 Pro onto it, so no worries if you're doing a fresh install of Win7 and presumably Vista from what I've read around the Internet.
2) Doing a long format (unchecking quick format basically) under Win7 caused the 750GB mechanical drive in my HTPC to get a 31k-bad offset, which was confirmed by me by running diskpart just to be sure. Sure enough the offset was 31k. Deleting the volume and then formatting with a quick format command sets the offset to 1024k, which is good stuff apparently.
3) Running Acronis from Windows or from a boot disk and setting the free space from 0.03MB (31k offset I thought) to 0MB before performing a recovery doesn't cure the offset issue.
My thought is to reimage my desktop's SSD to my Velociraptor 300GB, delete the partition on the SSD, do a quick format instead of a long one, and then reimage back the SSD with the partition alignment staying intact hopefully.
Just wondering if anyone has tried this procedure with success or failure to report?