Kiya, what you have to remember is this:
The first part of the tutorial is telling you how to set up all the Layers that you will need to complete our STAINED GLASS exercise. Everything that you are doing is being kept all together, like having all your bits in one cardboard box.
When you opened the IRIS picture that I posted for you to copy, it was like opening another cardboard box with other things in it,
the two boxes are not the same.
To tell which box we have open at any one time, the bar at the top of your picture window will be BLUE. Simply by clicking on the top of any picture, it will turn the bar BLUE and that will always be the one you are currently using.
Have a close look at these two pictures:
Select 1
Select 2
The first picture 'Select 1' is showing my Stained Glass picture BEHIND a picture of some Planets and alongside the Planet picture is a LAYERS pallet. That particular LAYERS pallet is the one for the Planets picture and NOT for the Stained Glass picture.
When you click on
any picture it will
always bring up the LAYERS pallet associated with
that particular picture, any previous LAYERS pallet will close down.
Note how the picture and the associated Layers Pallet both have a BLUE top, whereas my Stained Glass picture is 'Greyed out' which tells me it is inactive.
Now look at the lower picture 'Select 2'
Note that because I have clicked the top it now has a BLUE top and also has a LAYERS pallet alongside, also with a BLUE top and the Planets picture is now behind it and 'Greyed out'.
Also if you look closely at the 'Eye' icons of the Layers Pallet in both of the pictures you will see that they are different to each other.
When you want to add something from one picture (cardboard box

) and place it in another picture (another cardboard box). You do this by copying the thing you want to use from one box (picture) and then opening another box (picture) and putting it in there with the rest of the items, or in other words, we put it on another 'Layer' in that box.
So in the exercise you are working between your Stained Glass picture and then 'Borrowing' things from somewhere else, in this case we borrowed the IRIS picture by copying it.
It can be a bit confusing to start with and that is why lots of people get lost using Layers, just try and remember that every picture has its own Layers and that we can use things from other pictures and add them into our pictures by copying and pasting them as new layers in another picture.
Hope this helps, but get back if you are still not clear about anything.