I have used jekyllbootstrap to setup my blog at primux.in about 2 weeks ago. The blog has been hosted at github pages at primalpop.github.com. Following the advice from here I have created a CNAME file and pushed it to repository and also added the relevant CNAME records pointing to 18.104.22.168.
Now the problem is that, sometimes the website doesn't load at all from github pages. Most of the times, it loads the index page but every other url is broken. This has been the problem for some time. I initially thought it would take some time for DNS to propagate but it's been nearly 2 weeks now and still most of the urls doesn't work on the website. It has been frustrating to say the least when someone who reads the blog, comes back and say that the link is broken.
Any help would be much appreciated.