This pragma is not supported. You have to use __attribute__(align) as a workaround instead ( Listing: Using __atrribute__(align)). This attribute is documented in the CodeWarrior Development Studio for Microcontrollers v10.x Kinetis Freescale Build Tools Reference Manual (CWMCUKINCMPREF).
typedef struct { unsigned long x __attribute__((aligned (1))); unsigned char y __attribute__((aligned (1))); } new_struct;