Vaccines can be a part of powerful, effective, life-saving health care. So can antibiotics. If used inappropriately, vaccines can cause serious adverse effects, including disability and death. So can antibiotics. Like any medical intervention, there are benefits and risks.
Vaccines need to be evaluated individually. Each one is different in terms of effectiveness, complication rate, and how long it lasts. Each disease is also different in terms of vectors, seriousness, and how common it is. You need to weigh these factors and decide what risks are acceptable to you.
When doing your own research, I highly recommend reading the package inserts, available here: http://www.immunize.org/packageinserts/
When researching, keep in mind the bias of the source. CDC is strongly pro-vaccine biased, so anything *negative* they have to say about vaccines is likely to be accurate. If looking at a strongly anti-vaccine source, anything *positive* they have to say about vaccines is likely to be accurate.
Be aware that most physicians have *not* read the package inserts and may not be very informed about specific vaccines. Incidentally, this is true for most medications, which is why pharmacists are a better source of info than a doctor on drug interactions.
We are doing a cautious, spaced out approach to vaccination. If my child has a serious reaction to a vaccine, I want to know which vaccine it is, so I may safely continue with the others. Most serious reactions to vaccines happen when there are warning signs and contraindications that are ignored. Most serious reactions to vaccines happen on the *second* dose, not the first.
Regarding autism:
It is unlikely that vaccines cause most autism. It is known that vaccines can, in rare cases, cause encephalitis. Encephalitis can have identical symptoms to autism. So *some* cases of "autism" may be caused by vaccines, but certainly not all. There are documented cases of totally unvaccinated kids developing autism.
It may also be that autistic kids are uniquely vulnerable to vaccine complications. Correlation does not mean causation. I personally suspect that there is an unknown factor that is causing an increase in autism, allergies, autoimmune disorders, and vaccine injuries. I have no idea what that might be. But if my theory is correct, you would expect to see a strong correlation between autism and vaccine injuries, but absolutely no causal relationship.