I have an FPGA project file which I use to define FPGA memory blocks, I/O etc. We have a company project that pulls together various common VIs that people have written. I included the folder with my project into this top level project as an auto populating folder. It seems to work having a project inside a project but I am not sure if it is good practice.
I always create a separate project for FPGA files. Then I include that project inside the main project that calls the FPGA code. A project inside a project. Works well and is well organized. Once I even had two separate FPGA projects inside the main project. This works also.
