Hi @gadilinga
As shown in the S32K3xx Reference Manual, the only clock source of eMIOS is CORE_CLK and the clock limitations of S32K322 are the same as S32K344. So there should not be a problem with the clock configuration.
Did you configure PLL as the clock source? If so, could you check if the crystal connected to EXTAL and XTAL pins is generating the expected clock signal (I am assuming the board with the S32K322 is a custom board)?
Could you share images of the configurations made for the PWM and MCL driver configurations to check if there is no problem regarding these?
BR, VaneB