I just uploaded the latest developer release for WebService::Google::Reader. This is the first version that contains all the planned functionality and is mostly documented. I mainly use it to keep my desktop client synched after being offline for a while.
I have included a few example scripts as well- the most useful being reset-account.pl. It will remove all subscriptions and tags, and remove any tracking information- such as which entries were read, clicked, emailed. Google's backend may still store this information, but Google Reader no longer has access to any of it.
Please take it for a spin and let me know if anything's missing or needs changing. I'm planning on making an official release in the next few days.