In my opinion, yes, there is some value in getting your website listed in some directories–but not all.
The main trick is figuring out which directories are worthwhile. I'd put a higher value on sites such as BOTW or DMOZ over 99.9% of directories in your list.
The main thing is to check how often the listings are updated, are the pages cached regularly by the SE's and the general quality of the sites that are submitted.
What you're trying to do is to figure out how much trust and what value the SE's are giving to the sites.
There are probably a few jewels in your list but I would be very selective and once you have found a dozen good sites you'll have a high quality list for most projects.