Complicated scenario, help please?

I filed my state and federal tax returns as a single in April, and I paid $xxxx for the federal filing. I'm currently mailing my application for my husband's and son's ITINs by filing again as a joint return with them. 

 

First, I need to mail the ITIN applications together with my joint tax return. The IRS will issue the ITINs, and then I will process the amended return. 

 

Does this mean I would have to pay again for the federal return when I mail my application to the IRS for my family members' ITINs, and then for my amended return?