Brian
The 168MHz KV46 requires a PLL input between 8 .. 16 MHz; with an 8MHz crystal the input diver must be 1.
The VCO can be programmed to multiply the PLL input by 24 .. 55 (192MHz .. 440MHz from 8Mz input but to be valid the output frequency needs to be between 220MHz and 480MHz [28 .. 55 would be valid multiplications].
The PLL output is half the VCO frequency (although this is not shown in any diagrams) so valid PLL output frequencies are between 110MHz and 240MHz (MCGPLLCLK).
In RUN mode the maximum core frequency is 100MHz and in HSRUN mode it is 168MHz.
In RUN mode the lowest MCGPLLCLK is therefore too high to be used directly and thus must be divided by 2 at least.
To get 100MHz system /core frequency the PLL output must therefore be set to 200MHz (multiplier x50 to get 400MHz VCO) and the OUTDIV1 to 2. OUTDIV4 needs to be set to 8 to get the maximum bus/Flash speed of 25MHz. The fast peripheral clock can be up to 100MHz and the Nano-edge clock up to 200MHz (equal to PLL output).
Your setting of x25 for PLL multiplier may work but is operating the PLL outside of its specified range. The clock configuration tool is pointing this out and so you need to adjust (eg. to the values above) to avoid it complaining and to guarantee reliable operation.
Regards
Mark
P.S: The Tower Kit has an older KV46F150 (I don't think this is made any more) which has a different internal MCG design too, which doesn't allow 100MHz to be achieved in RUN mode from an 8MHz crystal (its multiplication range was x16..x47 and its VCO range 180MHz .. 360MHz) which only allowed 94MHz as closest legal frequency to 100MHz. I don't think there is an evaluation board with the 168MHz part so developments on the tower kit are not compatible with the 168MHz parts(!)