It appears so because when I remake the file
sudo -f filename.mk
after changing the value from 500000 to 16000000 I start to see data as expected.
you can execute the made package by running
sudo ./filename.elf
(in the folder above)
there also seems to be some changes not made in the MW_SPI.c file as well to reflect the proper speed.
I would also like to note that to those looking to transfer a large amount of bytes (over 4096) the SPI file also seems to be modifying the output to zeros. I believe this is due to the receive buffer size that is expected on the raspberry pi. It may be the pi settings, or the generated code limiting it.