Well you hang up is that when you Import images into Lightroom they become part of the catalog, which means that the catalog keeps a "reference" to the images, and keeps that reference, even if you go into your system to delete the image.
It's simple to handle this using the lightroom tools to move or delete images. You say you want to use LR only for RAW processing, and don't want to use it for organizing, and "Therein lies the Rub": Once you Import an image, you want to use the Lightroom tools to remove the image out of the Library/catalog.
This is quite simple -- if you have finished with an image and want to delete not just edited copies but delete the original, in the Lightroom Library Folder browser, just right-click on the image and Delete it, which will remove it both from the catalog and from your disk. It's easy! You can also rename files, move files and folders, all that stuff. But, if you insist on using your system tools to move, rename, delete, that type of stuff, well, there are workarounds in Lightroom. For example, if you have moved a file outside of Lightoom but you want to re-open in Lightroom, you can find the file in the catalog reference in the Library/Folders module -- it will show up as "Missing", but if you right-click on it you will see an option to "Find the Missing File/Folder". Or, you can Delete the missing file/folder, but remember that it's more eficient (time-saving) to use the Lightroom tools right off the bat!
Now if you are serious about only wanting the Raw development tools, then I'd say you should consider just using a dedicated Raw processor, ones are in the market today, or using Photoshop, where its built-in ACR RAW processor and its Bridge viewer can do all you need with your RAW files without the Lightroom built-in catalog organizing!
For me, once Lightroom was released with its first "stable" version back in '07, I took the leap for both the Raw processing and the organizational features. It took me some time to really delve into keywording and then stuff like groups, virtual Copies, all that stuff, although right from the beginning I was reading and working through tutorials, bith books and online resources,. I keep all my original/Raw files in my LR catalog, use LR to name files and folders and "place" the files in proper folders/places (great doing it as part of the Input function). The only reason for stepping out of Lightroom is when I'm doing stuff outside of Lightroom, whether it be to mess with files I have Exported from Lightroom of to mess with other programs, data and such!