Yes that counts as 2 stitches. There are so many ways to do the long tail cast on... some people make a slip knot as she mentions in the video, she just goes under the yarn to form her 1st stitch, I do a twist, coming in from the back. There is no RIGHT or WRONG, you do what ever is comfortable for you, but count each stitch on your needle and that is the amount of stitches you have to start your pattern.
Here is a link to how I start my Long tail cast on... the rest of the video may or may not help you.
http://www.youtube.com/watch?v=75KFz2gmmSM