Hi Sreekanth,
Pemicro uses *.mac file to perform some basic steps for debugging. You can find it at this path:
c:\NXP\S32DS.3.4\eclipse\plugins\com.pemicro.debug.gdbjtag.pne_5.2.6.202206301831\win32\gdi\P&E\supportFiles_ARM\NXP\S32K3xx\S32K324.mac
But it should be disabled by default. Could you check in debug configurations if it is disabled?

If this doesn't help, is it possible to provide simple project to reproduce the issue?
Regards,
Lukas