It's possible that these wood borers will grow into a beetle and fly away. And usually they don't return as the adult female beetle lays the egg between the bark and the inner wood. If these timbers don't have any bark on them then the beetle most likely will not return.
The current worm holes you have will add character to your frame.
Can you hear them chewing the wood, at this time? If so you could try another type of treatment that doesn't discolor the wood. Try it on a small sample timber first before doing it on a large good piece.
If you don't hear any chewing or see new fresh sawdust between the timbers then it's possible they have already flown away...

Checks in timbers are part of what timber frames are all about. They will continue to dry and possible check until all the moisture is out of all of the wood. This could take years, depending on the actual sizes of these timbers and how many surfaces are exposed to the open. For example a corner post has only two side exposed to the air, a wall post has three sides exposed, and a middle bent post may have all four sides exposed.

Part of preventing twisting is proper stacking for support. Some people say 4' on center is enough, others use 2' spacing between support blocks.
Also, weighing down the pile, on top, with other lumber or something very heavy to press the pile would/should have helped. But it is possible that you're beyond that now.

Usually you cut the joints and erect the frame as soon as possible after purchasing your timbers to prevent the timbers from twisting..

Jim Rogers