How can i be sure that the DMV has received the necessary paperwork from me to drive types NI and NA?
If the DMV has received the required paperwork your medical certification status will be "certified". Otherwise your status will be considered "not certified"
Can i keep my CDL but with restrictions on it?
Yes you are eligible for Excepted Intrastate Operation (EA). Make sure that your CDL has the restrictions: K CDL Intrastate Only and A3 Med Cert Exempt