Plug in the SSD by itself and install Windows on it. Windows will also create a 100MB "recovery partition" on the same drive (it would create it on the HDD if you had it plugged in during the install).
Once Windows is installed, plug in the 1TB drive. When you install programs they'll go to the SSD by default, but you can override it by selecting the "custom" install options if you want.
Move the home directory for your account to the 1TB drive and you're set - all of your files and documents will go to the 1TB drive by default.
will all my stuff open just as fast as if i had it on the ssd? i want the speed of the ssd and space of the raid