It is not possible to bypass the ECC and read/write using full 72-bit wide bus. The controller uses the last byte lane to generate ECC info and cannot be bypassed.
The refresh interval should be set as high as allowable by the DRAM specifications. This should be calculated by using tREFI in the DRAM specifications, which may depend upon the operating temperature of the DRAM. In addition, to allow a memory transaction in progress to be completed when the refresh interval is reached and not violating the device refresh period, set the REFINT value to a value less than that calculated by using tREFI. The value selected for REFINT could be larger than tREFI if the DDR_SDRAM_CFG[NUM_PR] has a value higher than 1. To calculate the max possible value when DDR_SDRAM_CFG[NUM_PR] is higher than 1, use the following formula: (tREFI/clk period) x (NUM_PR) = REFINT
For measuring MDQS, it should be at the cross point. For case of MDQ it is derated to the VREF.
tDDKHMH value of +/-525ps for MPC8360 part is a conservative value in the HW spec. For DDR3 with write leveling enabled, this AC timing parameter would be a non-factor.