Thank you for the response. I recently discussed this with a colleague who informed me that he had adjusted the calculations in the linux/drivers/mxc/ipu3/ipu_calc_stripes_sizes.c folder. I reverted the changes back to the orignal code but ended up with a different green bar.
Also, I took the ipu examples you linked above and modified the csc to do my color conversion at 1080p and 720p. You can see that there is a green bar on the right side of my 1080p image which is not present in the 720p image. Since this green bar was in a different orientation with the the modified ipu_calc_stripes_sizes.c code, I'm left with the assumption that the stripe sizes aren't calculated correctly for 1080p.
1080p

720p

For the record, I captured the image using gstreamer
$GST_DEBUG=2 gst-launch-1.0 imxv4l2src num-buffers=1 ! filesink location="/home/root/test.uyvy422"
I will also attach the modified csc example that I used to do this conversion.
EDIT: Also worth noting, when I use gstreamer to capture a video at 1080p there are no green bars
$gst-launch-1.0 imxv4l2src num-buffers=30 ! queue ! imxvideoconvert_ipu ! vpuenc_h264 ! queue ! flvmux ! filesink location="encoded.mp4"