I think currently one of the biggest risks for The Netherlands is salinization. If there is not enough river water and the groundwater level is too low, sea water will push upward, contaminating the river beds and increasingly much soil around it. This summer they had to close locks to block seawater and to increase the fresh water level. Of course, this has a considerable economic damage, since it blocks inland shipping.
Netherlands is also in a much worse position due to being downstream of literally everyone.
It's going to be a huge future fight in the EU because all countries upstream will want to retain 'all' the water and the remaining low flow will still have all those countries their industries dumping toxic waste, meaning the ratio of water-waste will get ridiculous.