Print And Cut Double Sided Issues

So did more testing today and double checked my backlash and dont really see any. but did a couple tests which the results i dont know what to think of. any help is appreciated…

One test i did was i just cut the squares and alignment markers and did not flip the card stock but i did run it through the print and cut process and recut the squares and all the squares were lined up and you could not tell it was 2 passes with one being the original and the second with the cut and print.

Here the strangest of all. I moved the alignment markers to the middle of the job and it looks like the skewed cuts also moved and almost made the error less noticible and spread out over all the squares instead of just the bottom ones but it is still off which i dont really what to make of it.