With a small, like 1 1/2 inch diameter max, it should not present too many problems. If you go over that size, it may end up being impossible to get the lid off some time. Burl does not tend to move as unevenly as side grain. When I make bigger boxes, I always make them out of end grain, and always from one piece of wood. That way, at least in theory, when you are done with the box, if it moves you should still be able to remove the lid. You may not be able to spin the lid all the way around, but, again, in 'theory' the lid and base will move the same so the lid should still come off easily.
robo hippy