CTRL+S or MENU > SAVENew chips start in the "Other" collection - you can use the JUMP UP/DOWN and MOVE UP/DOWN on the chip in the library screen to move them around between collections.
but how to make it have these things in the new project too?
make them in new project too
You could have a "template project" with all the basic gates and then when you start a new project you clone that one.