I just checked this and it all works for me. Here are the steps that I took though.

1 Bootup Studio One to the start page first. Do not open any songs.

2 Click on Create a New Song

3 Select User in the left section. Make sure no templates are selected on the left there. If one is selected then click on the blank area below the user templates.

4 Before you name the song, it should show the date and your name. Now give it a name e.g. Start Template

5 Make sure all the settings below are what you want. e.g. sample rate, bit depth, tempo could be 120 and the length. It defaults to 5 minutes. You may want Bars or Seconds here. Also you may want the Stretch Files to song tempo checked as well.

6 Click on OK. A blank song will come up. Now add tracks etc to get you started.

7 Save AS a Template and name the template here as well.

8 The templates folder will be created with your new template inside.

Close the session. Now try creating a new song again using your new template. You will have to name it at this point though because it will be your name and the date again. (you don't have to though because you can also name the song when you save it) It should all come up fine now with all your fave settings etc..

What Bob says could also be true as well. When setting the sample rate for the first time ensure your Fireface is at the correct sample rate. I am using a Focusrite Clarett over thunderbolt and it seems to obey whatever is set in Studio One.