In addition the NBA training argument is useless as those players shoot FT at decent level and train to maintain their skill, you will never find a player that went from 30% FT to 80% during his career.
You'd also never find a team in the NBA deliberately losing their last game(s) to finish one spot outside of the playoffs for some financial benefit. ;)
It's really pretty straightforward: if you don't want your guys to make 3pt shots, you don't train jump range. If you don't want them to turn the ball over every time they touch it, you improve their handling / passing. If you don't want them to shoot abysmally poor from the line, you train FT.
Now, of course, 0.00% on a thousand attempts, yes, is absurd. But if they elevate everyone to, say, 35% minimum, then everyone who has invested their time and training into fixing the problems with their guys have suddenly seen the value of that training decrease dramatically, all in order to solve a non-problem.