Any slowing of damage to the leaves, yet? Are the new shoots a bright green?

I think I'd wait to transplant them. At least for a few days. Likely they are a bit stressed, and transplanting won't help much right now. I'd give 'em a bit of time, so you can observe how they look after the flush, and go from there.

I usually take baby-steps. From one cup, to a one gallon, to a 3 gallon.This takes me thru veg. Then, I transplant to a 5 or 7 gallon pot, a couple of weeks into flower.