I am having this same issue but with version 10.0.0
Hey Vijayakumar,
Have multiple branchs locally should not be an issue. Did you try to download the second branch to a new empty folder outside the folder of the first branch?
You can try to clone the repository using the following console command:
git clone -b <branch_name> <gitURL>
The Git URL is available on the Team server
Another possible cause for this issue, could be related with the path length. It should have at max 260 characters.
So be carefull with your folder location.
If this answer helped, mark as "accept" :)
Best Regards,
Ricardo Pereira