Section 7.1 of the BeagleBone Black System Reference Manual details all of the pins on the two expansion connectors (P8 and P9). On P8, pins 7, 8, 9, and 10 correspond to TIMER4, TIMER7, TIMER5, and TIMER6, respectively. In order to use those pins, you will need to configure the corresponding timer (see Section 20.1 in the AM335x Technical Reference Manual).
The TIMER4, TIMER5, TIMER6, and TIMER7 names can be found in most of the documentation, including the schematic, the BeagleBone Black System Reference Manual, and the AM335x Technical Reference Manual. These pins are used by the corresponding timer for various purposes. One of those purposes is to produce an external clock.