This car is a classic case of why I've always said it should be all or nothing when it comes to investing in a restoration project. Here we have a clear case of a beautiful car built on rusty bones. The guy obviously spent money on nice body and paint, new mechanicals, interior etc... but neglected to start where it matters most.
When restored, this car like any other, should have been stripped to a bare shell, sandblasted and ALL the rust issues addressed properly before spending any money making it "look" pretty.
Even now, by scrapping one area of the frame rail and finding holes, repairing them only to find more holes six inches away...is not the best way to do it. I've said it a hundred times in other threads where I see someone doing rust repairs on a small section at a time without properly stripping the whole car....you're just wasting your time.
In the case of this very sharp looking Cuda, I think you have no other choice now to patch up whatever you find and plow on another thick coat of undercoating