tabindex on links in version 9

It seems that tabindex property is not working for links in version 9. We are using version Looking at the html it seems that tabindex property defined in the extended properties has no affect on the html generated. Compiler seems to be using autogenerated tabindex for these. Any ideas ? 
I'm using version and its working fine.
I created a new e-space from scratch and it seems to be working. But it is not working in one e-space that we upgraded from version 8 to 9. For now I am using jquery to set tabindex to circumvent this problem.