For visualization our group had some success with prefuse. We extended it to handle architectural floorplates and bubble diagraming, and it didn't complain too much. They have a new Flex toolkit out too called Flare that uses a very similar API.
UPDATE:
I'd have to agree with the comment, we ended up writing a lot of custom functionality/working around prefuse limitations. I can't say that starting from scratch would have been better though as we were able to demonstrate progress from day 1 by using prefuse. On the other hand if we were doing a second implementation of the same stuff, I might skip prefuse since we'd understand the requirements a lot better.
