BG1:EE SCS question

Hello all,

I am installing scs for the first time for BG1:EE. However, it keeps saying it is skipping things that it should NOT be skipping!

For example, it says it is skipping smarter sirines and dryads because it only applies to BG1. But I am installing it in the BG1EE directory!

Does anyone know what I am doing wrong here?

Edit: it is like scs thinks I am installing it in the BG2 directory, when I am definitely not doing that.