Hi LOTRJ, I just verified that Trim+Join does work to get a solid with stuff in your original location, if you zoom in and pick those 3 additional little pieces that were poking through to keep as well.
So just in case you don't want to move anything around later or something, that method is available.
I'll take a look and see if anything sticks out very easily about why the booleans did not work well in these cases, but it tends to be awfully difficult to figure things out in debugging when there are a lot of pieces, sort of like looking for a needle in a haystack...
- Michael
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