As long as the net pot is not changed then water is water. The roots and plant don't know how they are feed just that they are. Changing your system will not automatically shock or cause problems. It may change how they drink up their nutrients but I don't think there will be a change. It may even do some good and make the roots grow out or down a little more.

You are not changing your net pot are you or your grow medium? Just how you deliver the water?

I don't see any problems.