for using a piCaptureSd1 hat between lcd screen and pi board , just need to remove the raised stands for pi, increase the height of the whole enclosure a bit, maybe add some vent-like holes for the bottom ?
for using a custom incur pcb, remove a panel from right of the case next to the pi exactly the same as the removed panel on the left
both these changes on the same file
perhaps some better instructions so you know which file to print depending on your use ?