Sorry this wont be much help but I had that problem once too, I think in X1 or v.7. It wasn't from an upgrade though.
I was typing a track name and looking down at the keyboard. When I looked up it saw that the cursor had for some reason jumped out of that field, so every letter I typed was a key command. I didn't see any changes at first and did a bunch of work before I noticed.
(rant: I REALLY dislike that the cursor leaves the selected track name field without hitting enter or clicking somewhere. When you are using the arrow keys to move the cursor back to the first letter it is very easy to go past it and suddenly you're out of the field! Then you have to click back in there again!)
Well, a LOT of things were changed!! And all the envelopes got disconnected from the controls just like you are describing. I couldn't find any help for that strange problem and was never able to salvage that file. I think I ended up selecting all audio clips, copying and pasting them all into a new project. Something like that.
So I would also like to know the answer to this!
Scott