There isn't a mass conspiracy of doctors to cover up the harms done to kids by vaccinations. The harms are understood well enough, now, to know unambiguously that the tradeoff of vaccinating your kids is more than worth it. More knowledge is always worthwhile, but we have enough knowledge now to decide that vaccinations are unambiguously the right path, and there is no scientific basis for reopening the discussion on that subject.
The "real problems" are the returning infectious diseases which have the potential to kill millions of people. I simply do not care about the issues you are bringing up when i.e. the return of rubella or polio is a real possibility.
After all, vaccines aren't risk-free, but they don't cause autism.
Nothing is risk-free. Eating food has risk, taking paracetamol has risk, getting blood drawn has risk.
Saying something has risk without talking about the amount of risk and the context of the risks it mitigates is pointless.
Vaccines introduce negligible amounts of risk. Giving your child a peanut or taking them for a drive is much riskier, and we almost all do those things without a second thought. By contrast, they mitigate huge risks: the diseases we vaccinate against can, did and do cause horrific harm up to and including death, and do so very well.
Vaccines are not immune to criticism, it is just they have weathered all the reasonable criticism leveled at them. If you are willing to put your child in a car, giving them a vaccine should be a complete non-issue for you.
The claims that all of these vague areas you point to might be issues are clearly just designed to put doubt into people's minds. They sound like they could be reasonable concerns, but I have never seen any evidence to back any of these up as real issues, despite intense scrutiny of vaccines.