Tool/software:
I am attempting to link-up using the following algorithm for PHY configuration. My PHY is strapped to manual mode in hardware. Code is under some cleanup, so going to instead provide the excerpts from the datasheet to explain what registers I am setting on bootup. This is an example of setting one of my ports to SLAVE mode.
followed by configuration of LED1 on PIN14 of the PHY. This is to use the CLK pin as a PHY status LED to indicate link-up and activity: