I'm looking at the TI SDK7 EVM device tree (am335x-evm.dts) and I've found a few pins which simply are not configured but are indeed used in the schematics:
For example, ball C14 (EMU0/GPIO3_7) is used for JTAG_EMU0 and ball B14 (EMU1/GPIO3_8) is used for JTAG_EMU1. Both of these have 2 mode options but as far as I can tell in the device tree, neither are selected.
From the data manual:
The reset mode for EMU0 is 0 (EMU), is this the reason why the pin mux mode was never explicitly set in the device tree?
The same question, and assumed answer, applies to:
C14 - EMU0/GPIO3_7
B14 - EMU1/GPIO3_8
F16 - USB0_DRVVBUS/GPIO0_18
F15 - USB1_DRVVBUS/GPIO3_13