1) The MPC8308 eSDHC was designed for MultiMedia Card System Specification, Version 4.0. That time eMMC had not been introduced yet. Also MPC8308 eSDHC support 1-bit and 4-bit MMC i/f but does not support 8-bit. However eMMC 4.x devices should be backward compatible to the MMC 4.0 and support 1-bit and 4-bit interfaces. I think you should ask eMMC producer for the compatibility
2) Unfortunately I could not find such schematics. Shortly the additional ECC memory should be connected to the MPC8308 in the same way as memory connected to MDQ[0:7], MDM[0], MDQS[0]. But instead of MDQ[], MDM[0], and MDQS[0] the ECC memory data pins should be connected to the MECC[0:7] MDM[8] MDQS[8].
3) In 16 bit mode you can leave MDQ[16:31], MDM[2:3] open; unused MDQS pin should be grounded with 150 Ohm resistor.