I suppose it's because that the userdata may be for the 16 GB device and not for the 64 GB version.
I solved the problem now by installing the xiaomi global rom (MIUI7-V5.12.24-Global_5.1) instead of the native android and afterwards the xiaomi.eu via twrp.
now playstore is still running fine and the storage is correctly specified by 64 GB (58 gb free).
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