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If there is on board LED directly connected to FPGA "DONE" output, then it is also possible to control it as long as it is possible to configure the FPGA (or PL portion of Zynq). For Zynq the PS subsystem is not needed if configuration is done via JTAG.

The good thing about Done LED is that if it is available it has fixed location, there is no need to assign it to some pin and it has fixed available power as well. The tricky parts is that DONE output is controlled by FPGA Primitive so the code to control the Done LED is different from that of normal PL I/O Controlled LED.

MIO LED

If there is a LED directly connected to lower MIO Bank of the Zynq then this LED is also always controllable, as this Bank has to be powered for the device to boot. This LED can also be controlled if the PL portion of the Zynq is not configured or even un-powered.

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