We know what you want. But you hadn't described what was wrong. At least now the image shows us something is wrong, but still isn't clear what.
I don't understand your array manipulation at the top of the last For Loop. Why are you replacing array elements? Or even have an array at all? What is the array that is initializing the shift register? You are always indexing out element 0. It seems to me that index 1 would be properly, The subVI looks for "left/top". I think stitching vertically, the top of the image is being moved down, not the left. Wouldn't that be the second element of that array? And why play with an array at all. Just put an integer in the shift register, read the value, combine that into the array with a 0 for left. Take that original element and add the height and put that scalar in the shift register to be the new top for the next iteration.
Also, check the detailed help for Image to Image function. There is a 3rd image reference input you have unwired. Since that says destination image, I'm think that is what your Stitched image reference should be wired into. But it is all very confusing as you are combing 2 images, yet the subVI has 3 inputs and 1 output. You may even need a shift register on that reference wire.
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