My kid played D3 baseball with a chronic hamstring, torn labrum (throwing shoulder), torn PCL, hamate fracture, and more. He managed to gut his way through 122 games over 4 seasons. His performance was definitely impacted by all the injuries, but he managed to stay in the lineup and I don’t think he would change anything (he stilled loved playing).
Has your son fully recovered from his injuries? That should be a big factor in his decision. If he doesn’t show up on campus next fall at 100%, any level of college baseball will be tough, especially since speed is one of his best tools.
California juco definitely might be a good choice. An injury free juco career would eliminate that concern with potential D1 coaches. And if injuries continue to be a problem, he could lower his sites when choosing a 4-year school or give up baseball altogether. Would there be any reason for him to go out of state for juco? Different governing bodies and recruiting rules outside of CA.
Has he ruled out a gap year? More difficult to play good competition during a gap year, but he could heal, work out, and maybe pursue other interests like travel.
All the best.