Hello @Iotelctronic ,
Thanks for your post and sorry for the late response.
I have checked the Reference manual of MKE06Z128VQH4. You can see that the FLL is fixed at 1280. It cannot be modified in the Clock Config tool, which is expected and not an issue.

Additionally, please refer to Table 5-5, which lists all available combinations of sources from the OSC clock for this device. As shown, in FEE mode, considering the limitation that the FLL is fixed at 1280, we recommend using an 8–10 MHz OSC with RDIV set to 256, or a 16–20 MHz OSC with RDIV set to 512.

A 12 MHz OSC is not listed, which indicates it is not recommended. I tested both 10 MHz and 16 MHz configurations in the Clock Config Tools, and there were no issues.
Hope it helps.
BR
Celeste
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