Hi,
Thank you so much for your interest in our products and for using our community.
I am testing the example frdmke16z_ftm_pwm_twochannel (SDK version 2.13.0) and probing the signal using an oscilloscope on LEDRGB_BLUE, it does output the PWM as expected
nxf86756_0-1683168777725.png
Maybe the reason you don't see the signal on the arduino pinout is that R9 is not populated by default.
nxf86756_1-1683168791205.png
Hope it helps you.
Have a nice day!