I think I need to disagree a bit there
The type of programs I'm thinking of have as little to do with reading software as Caliber or other conversion stuff.
I'm thinking specifically about programs designed to create order within your library, not ones to read ebooks in or load books to devices.
I will post my topic there, but I do think that sorting and organizing is going to become as big an issue as conversion soon. With all the free books flying around, it's hard to keep track!