We are using Html Agility Pack to scrape data for HTML-based site; is there any DLL like Html Agility Pack to scrape flash-based site?
It really depends on the site you are trying to scrap. There are two types of sites in this regard:
If the site has the data inside the swf file, then you'll have to decompile the swf file, and read the data inside. with enough work you can probably do it programmatically. However if this is the case, it might be easier to just gather the data manually, since it's probably isn't going to change much.
If most cases however, especially with sites that have a lot of data, the flash file is actually contacting an external API. In that case you can simply ignore the flash altogether and get to the API directly. If your not sure, just activate Firebug's net panel, and start browsing. If it's using an external api it should become obvious.
Once you find that API, you could probably reverse engineer how to manipulate it to give you whatever data you need.
Also note that if it's a big enough site, there are probably non-flash ways to get to the same data:
EDIT: if your talking about crawling (crawling means getting data from any random site) rather then scraping (Getting structured data from a specific site), then there's not much you can do, even googlebot isn't scrapping flash content. Mostly because unlike HTML, flash doesn't have a standardized syntax that you can immediately tell what is text, what is a link etc...