I have used this scanner and it is very good.
Are you on a mac or pc?
when using scan wizard.

1) Do an overview
2a) set resolution, colour or b&w, neg or pos, colour depth, etc.. and these settings will apply to all the individual selections.
3a)select individually the items to scan
2b)select an area to scan
3b)set parameters as in 2a
-- repeat 2b and 3b as needed

4) select scan a dialog box may appear asking for a file name and whether or not you wish the program to increment the succeeding scans -- answer accordingly.

I hope that helps.

Silverfast has a tool bar that steps you through all the possible steps. You can recognize it by being a vertical thing with an airplane icon.