Seems to be tied to the pin configuration, rather than processor type. In the S32K344 projects PTA0 is connected, in the S32K324 projects PTA0 is not connected. As PTA1 is connected the PortPin Mscr value of 1 is valid. This was not the case with earlier versions of the software.
I would like to understand what the correct setting is here as I can define PTA0 in the PINS tool, even though it is not connected and set PortPin Mscr to 0 or leave PTA0 undefined and set PortPin Mscr to 1 as PTA1 is defined?
Can anyone explain this change in behaviour of the tools and why, it seems, this value is now some kind of index to the first pin defined?