Well that simplifies things

That is not a
J. communis. It is some type of
J. chinensis - possibly
J. chinensis 'San Jose'. These trees will sometimes revert to juvenile foliage when they are heavily pruned or repotted. If there is a 'secret' to keeping the mature foliage, it is to not mess with the tree too much

Easier said than done, but an old tree that is well established in a pot will slowly revert to all mature foliage, or you can selectively remove the juvenile growth if it is growing somewhere you don't want. You will also find that the more you build up ramification, the less likely the tree will be to throw juvenile growth from any one point. Otherwise your tree looks perfectly healthy and strong to me, though the next time you repot make sure you get into the rootball and remove ALL that old soil. (In a year or two since you just recently repotted)
San Jose junipers were planted extensively on the west coast in landscape, and it is a common practice there to get a big fat one and then graft shimpaku foliage on it... gradually removing the original (rough) foliage until only shimpaku foliage remains.