My experience has been just after dormancy. If I were still growing in containers, this would be what I would be doing. The roots will continue to grow even if the top is dormant providing the temps are above ~55F. The advantage to doing root work just after dormancy is the roots have time to rebound during dormancy and top growth will be more vigorous when the tree wakes up in the spring.
Like I said, this is my experience in the south. My trees went through a quiet phase, but I'm not sure they went completely dormant. If I were in the north where the trees are overwintered, I would test a couple of plants against a control to see if the results are similar.
~james