Well, as the WPL owner these days I know it's a little confusing, so
The WPL contains two projects, AntiXSS and the Security Runtime Engine. Previous versions installed both, but really they're quite separate and the SRE is an ongoing project which is getting a major rewrite, so rather than hold up the latest changes to AntiXSS whilst I pottered around some more with the SRE we made the decision to split them out, and ship separately.
So right now AntiXSS 4.0 on msdownloads is the most up to date encoding library.
As part of the source push the latest source for the SRE will be pushed as well - however the SRE is still a work in progress, and will remain so for some time, so it'll be source only for a while.
We're still trying to figure out how best to address this in terms of codeplex projects :)