How can i make sure the changes i make to cards on my phone sync and don't get overwritten by the default deck on the PC?

Hello,

If you are using AnkiHub, you will need to protect the fields you are making changes to if they are not already protected, see this post for more info on this: πŸ” Protecting Fields and Tags

Also, are you prompted to click upload to ankiweb or download from ankiweb?

If you made changes on your phone then sync. When you get on your computer make sure to click download from ankiweb to receive the edits from your phone (this rarely happens but just wanted to point that out)