Hi,
If the PA[13] is used as LIN0_RXD, then MSCR_IO[13] must be configured.
But you must set both the RX and TX pins of the module for proper operation. The RX pin must be able to monitor the TX transmitted signal.
If you want to test communication between modules and as there is only single LIN transceiver available on the EVB, LINFlex modules could be connected together before this transceiver in the way TX pins together and RX pins together.
TX pins must be configured as open drain and use a pullup resistor. Transceiver must be powered for sure.
BR, Petr