The article states there never was any evidence U-boats had penetrated the Great Lakes. Now they have that evidence. The article doesn't say if the interior had been flooded either. Since Lake Ontario is a fresh water lake and free of a corrosive salt content, it should be in good condition. Since divers found it, it must be in relatively shallow waters. I don't know how they could have missed this submarine for all these years.
The article states this was an experimental sub so records on it may be scarce and incomplete.
Thanks for finding and posting the article and link.