Well, races and qualifying are different results. Maybe Charles could qualify better in most of the races, however racing itself is a totally different beast. Why? Well in racing you have overtaking, courage, race pace, strategy, all mattering into your last lap result, whereas at QF you just end up with whatever fastest you can do.

Hamilton may end up with more points at the end of the season, even on his first ever season, dude is 7 times world champion for a reason, and obviously he is going to be a lot more careful. Not because Charles is slower or worse, it is because Charles doesn't know what it takes to win, and ends up risking way too much and DNF in many races, and makes bad decisions in tons of others.