Mint uses Yodlee [1] for website scraping. Wesabe built their own and apparently inferior scraper, and this could be one of the reasons of why they lost to Mint.[2]
Apparently after being acquired by Intuit, Mint started using the Intuit aggregation framework. They seem to have made the transition fairly transparent as I had no idea it had switched.
That's intriguing - I thought one of their privacy promises was that they don't hold on to the login information for your various accounts, that it lived with Yodlee.
Seems like to do a transition they'd have to break that promise.
[1] http://www.yodlee.com/
[2] http://blog.precipice.org/why-wesabe-lost-to-mint