Good news! The major dents popped right up as you said they would! It looks like a different roof now, it is already a huge improvement although it seems there is still a lot of work to do before it's perfect.
I can't believe it freaked me out so much, I thought I was going to have to cut the whole roof out and strat from scratch!
I'll post some pictures for you as soon as I can download them off my camera.
I think the rest of the work that will be necessary is easily covered by your 'dent repair' guide, but I'll still keep you posted on how it's going.