If you install AmiKit for the first time, it does NOT contain any system files. These system files needs to be imported from an external source during the first run of AmiKit.
You can use AmigaForever2005 as a source:
If you have an online version of AF2005, you have to install it onto your computer BEFORE running AmiKit for the first time. Then run AmiKit and select AF2005 Online as a source. Once the AmiKit is fully functional, you can uninstall AmigaForever because it is not needed for AmiKit anymore.
If you have a CD version of AF2005, you do NOT need to install it. Just insert this CD into your drive when running AmiKit for the first time and select AF2005 CD as a source. That's it.
BTW an annoying behaviour when I insert a CD, Amikit disappears while Windows desktop jumps to the front to ask what it wants to do with the disk. Is there any way to avoid this?
This should NOT happen if AmiKit runs in fullscreen mode. At least it's not happening here ;) However I believe it is possible to disable this annoying Windows feature somehow...
To run AmiKit in windowed mode, untick "Fullscreen RTG" option in WinUAE Dispaly section. In that case your Windows screenmode should be larger than AmiKit one, you know.