I think the back loops are the backs of the color change when switching from sole knitting to the instep.
Btw, I believe there was some comments much, much earlier in this thread about different pattern numbers (?) for the clogs. AC33 and AC33x? I recently was in a LYS that had the older pattern! If I had to choose between the two (and yes, you DO get the same result), I would take the AC33, as it seems to be clearer (both literally and figuratively). Printed on white paper, too!
The pattern was at The Mannings when I visited there this past Friday. I know they do some small amount of mail order, so if anyone is interested, I guess you should specify you want AC33.