Hello Takis Zourntos,
Regarding soldering in the 0-Ohm resistors, this information is stated in the readme file of the example. This file comes in all the examples of the SDK and it states all the steps that you need to follow to run successfully the projects.

The intended application of the Inter-Peripheral Crossbar Switch (XBAR) module is to provide a flexible crossbar switch function that allows any input (typically from external GPIO or internal module outputs) to be connected to any output (typically to external GPIO or internal module inputs) under user control. This is used to allow user configuration of data paths between internal modules and between internal modules and GPIO.
With the following lines of the PWM project:
XBARA_SetSignalsConnection(XBARA1, kXBARA1_InputLogicHigh, kXBARA1_OutputFlexpwm1Fault0);
XBARA_SetSignalsConnection(XBARA1, kXBARA1_InputLogicHigh, kXBARA1_OutputFlexpwm1Fault1);
XBARA_SetSignalsConnection(XBARA1, kXBARA1_InputLogicHigh, kXBARA1_OutputFlexpwm1234Fault2);
XBARA_SetSignalsConnection(XBARA1, kXBARA1_InputLogicHigh, kXBARA1_OutputFlexpwm1234Fault3);
You are setting the PWM channels to a positive logical level, this way when the trigger condition of the PWM occurs the channel will go to a High State. If you comment these lines then when the trigger condition of the PWM ocurrs nothing will happen, the channel will stay on the same logical level.
Regards,
Victor.