First and foremost introduce concepts like version control from the beginning. As for the rest, the motivated students will teach themselves the relevant things and the others will fail/drop out. That seems to take place now.

My biggest complaint with the education system is more general and not CS specific. Remove all of the gen ed requirements. REMOVE ALL THE GEN ED REQUIREMENTS. They don't make you "more well-rounded" they just set you back 2 extra years and throw you into twice as much debt as necessary. We spend 13 years learning the foundational things just to spend 2 years in college paying out the nose to go through it again.

Fix that and add a few relevant ideas into CS degrees and I think the education system is decent. There will always be bad teachers, but software developers need to be able to pick things up themselves so it's just preparation for when they get a job and have a useless senior dev to work for.