Hello @em2
You can use another crystal oscillator with MBDT, but requires more settings and changes to our toolbox to be performed. I don't know which s32K11x or S32K14x you are using because the settings differ a bit. Anyway, when the code is generated, a file is copied from our toolbox, s32k_clock_init.c (the location differs if the board is s32k11x). SO if you want to use another clock configuration, you have to rewrite this file.

If you change the input code frequency then all the clocks must be adjusted, because the contains you need to respect. Of course, you can do this with the S32DS fro Arm. In our toolbox you can find also the S32DS project for the above file. You can import it and adjust the configuration according to your needs.

Another similar post you can find here https://community.nxp.com/t5/NXP-Model-Based-Design-Tools/Change-of-Crystal-and-Lock-Frequency-Model...
Hope this helps,
Marius