Even if tools like Google Search Console and Myposeo let you understand the ‘Not-Provided’ information, it is still not possible know and monitor a 100% of the traffic-generating keywords. The point is to identify and monitor the most relevant and high-performing ones.
The traffic estimation data are estimates and trends. The keywords will never all be clear (all versions) and click through rates can vary under different configurations (type of research, composition of results etc.).
Brand / non-brand assignment and topic-wise classification of your queries are essential for precise work, especially when you are working with several thousand keywords.