Wish I had seen this topic earlier. I don't have any links per se on this issue, but I have a heck of alot of personal experience with it and I'd be happy to discuss specifics with anyone here via PMs if they have some issues and help them anyway I can in that fashion.
I have an 11 year old daughter who at the age of 18 months started having seizures shortly after she received the MMR shot. They got worse and worse to the point where she was having any one of 7 different seizure types. Mostly they were the petite mal types, but they were happening hundreds of times per day. We ended up taking her to UCLA who put her on all kinds of medication, ran all kinds of tests on her and ended up putting her on the ketogenic diet. Their diagnosis? She had intractable epilepsy and was moderately autistic, I forget what stage they said it was, but one thing we were told was that she would be totally non-verbal her entire life.
UCLA is a wonderful place and they have a world-class pediatric neurology department, but in my daughter's case, they were wrong. She is now in public school, mainstreamed in language arts and the best speller in her elementary school. She spelled 400 out of 400 words this past school year correctly, and trust me, she's hardly non-verbal at all. I have to tell her to be quiet quite a few times.

Her doctor's take on the MMR stuff was that it didn't cause the epilepsy or autism, but rather stimulated it. He told me that kids who are suseptible to neurological problems like that can have the problem triggered by these vacines or immunizations, but they would eventually exhibit those problems anyway.
Autism is a very strange and difficult thing, and the rapid increase in diagnosis of it may be due to an increased awareness of the affliction and a broadening of the symptoms. It's a very difficult "disease" to really define.
It's even more difficult to treat, but there are some good programs out there that have proven track records.
This is one that is pretty goodBy the way, my daughter is now completely off medications and has been seizure-free for over two years now. Miracles do happen.