Hey there! Im working on a little project of mine. I'm having a little trouble linking modules into the linux source code. (I got the code from kernel.org) but at the same time I can't tell if i'm suppose to be linking my modules into the source code itself or the compiled bzImage..

I was reading some documentation and it all talks about to compile modules into our already installed linux system's kernel rather then linking it too bzImage or the code itself. Help would be appreciated thanks!

No, you don't link modules into source code; you link them to the compiled image. Or rather the udev daemon links them in as and when they are needed.

Many parts of the kernel such as hardware drivers can be treated in three different ways:
1) Compile them right in. Then they are available immediately. If you are compiling your own kernel, you can compile in the drivers for your hard drive and filesystem controllers so that the kernel can access them without needing an initrd.

2) Compile them as separate modules. These are like miniature libraries which the kernel can link to and then access at need. In a modern Linux system, this is done by udev.

3) Don't compile them at all. If you are making your own kernel, make it lean and mean.

Your bzImage becomes the core of your kernel. Rename it to something sensible and copy it to where the bootloader can find it. The modules that you have compiled end up in /lib/modules/x.y.z where the system expects them to be.

Thank you!